https://www.aclweb.org/aclwiki/api.php?action=feedcontributions&feedformat=atom&user=DinaACL Wiki - User contributions [en]2026-09-11T07:11:28ZUser contributionsMediaWiki 1.43.6https://www.aclweb.org/aclwiki/index.php?title=File:IMG-20260308-WA0006.jpg&diff=14037File:IMG-20260308-WA0006.jpg2026-07-03T14:27:55Z<p>Dina: Orikhiv, summer 2023. Bombed- out school. Kev found the school nurse's notes.</p>
<hr />
<div>== Summary ==<br />
Orikhiv, summer 2023. Bombed- out school. Kev found the school nurse's notes.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14036BioNLP Workshop2026-07-03T14:09:26Z<p>Dina: /* Message from Kev */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
<h3>Schedule</h3><br />
* [https://docs.google.com/document/d/1aGaDRmcGNPdeGZbO3dDglFA7zf9XYxqcli0POcCXVFk/edit?usp=sharing July 3 ]<br />
* [https://docs.google.com/document/d/1GHnmXhsumseG6Kxm6Vt8iCWSv9uxsEDZ/edit?usp=sharing&ouid=114874328739866572425&rtpof=true&sd=true July 4 ]<br />
<br />
===Message from Kev===<br />
<br />
Welcome to the 20th annual meeting of the ACL Special Interest Group on Biomedical Natural Language Processing (25th BioNLP workshop). My name is Kevin Cohen. For 15 years I was the chair of our Special Interest Group, but today I serve in the Armed Forces of Ukraine. I have bad news for you, and I have good news. <br />
<br />
<br />
The bad news: as a volunteer in Ukraine, I have come to appreciate the fundamental injustice of paywalled scientific publications more than I ever could have before. Most advances in combat medicine are coming from the battlefield here. Working as a medic, I contributed plenty of data points to those papers. Having gotten seriously ill during deployments two times, I AM a couple of those data points. But, paywalls keep more than 50% of PubMed-indexed publications out of the reach of Ukrainian medics. People like you write, edit, and review those papers–for free. The publishers profit from them–from your sweat, and our blood. I have seen no improvement in the situation in the past four years. I hope that you will continue to work to change it.<br />
<br />
<br />
The good news: biomedical NLP seems to be in great shape! One of the great joys of my retirement was canceling my subscriptions to every f^^^ing mailing list I could think of. I did stay on one: the BioNLP mailing list. Watching the list, I see that our field continues to flourish. You might not believe that it can put a smile on my face in the middle of hell to see an announcement of a new shared task or workshop. But, it does! I have always loved the potential of biomedical natural language processing to reduce avoidable pain and suffering in the world. I still do. I wish you interesting results and a great workshop. <br />
<br />
<br />
Kev<br />
<br />
====Kev's Video====<br />
https://www.youtube.com/watch?v=1SkgZfJ7K6w<br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
<br />
<h3>Program Committee</h3><br />
<ul><br />
<li> Abdulrahman AAl Abdulsalam, Sultan Qaboos University, Oman </li><br />
<li> Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK </li> <br />
<li> Rohit Agarwal, UiT The Arctic University of Norway </li><br />
<li> Aizierjiang Aiersilan, The George Washington University, USA </li><br />
<li> Ebrahim Alharbi The University of Sheffield, UK</li> <br />
<li> Daniel Andrade, Hiroshima University, Japan </li><br />
<li> Eiji Aramaki, University of Tokyo, Japan </li><br />
<li> Niloofar Arazkhani, University of Pittsburgh, USA </li><br />
<li> Steven Au, University of California, Santa Cruz, USA </li><br />
<li> Davis Bartels, National Library of Medicine, USA </li><br />
<li> Hadas Ben Atya, Technion -- Israel Institute of Technology, Haifa, Israel </li><br />
<li> Krushil Bhojani, SUNY Polytechnic Institute, USA </li><br />
<li> Madeline Bittner, National Library of Medicine, USA </li><br />
<li> Leandra Budau, Toronto Metropolitan University, Canada </li><br />
<li> Ioana Buhnila, Center for Data Science in Humanities, Chosun University, South Korea </li><br />
<li> Leonardo Campillos Llanos, Universidad Autonoma de Madrid, Spain </li><br />
<li> Liuliu Chen, University of Melbourne, Australia </li><br />
<li> Brandon Colelough, National Library of Medicine, USA </li><br />
<li> Brian Connolly, Cincinnati Children's Hospital Medical Center , USA </li><br />
<li> An Dao, The University of Tokyo, Japan </li><br />
<li> Dina Demner-Fushman, National Library of Medicine, USA </li><br />
<li> Oumaima El Khettarim Aix-Marseille University, France </li><br />
<li> Mohamed Elmofty, Humboldt University of Berlin, Germany </li><br />
<li> Pietro Ferrazzi, Fondazione Bruno Kessler - University of Padova, Italy </li><br />
<li> Kathleen C. Fraser, National Research Council Canada </li><br />
<li> Natalia Grabar, CNRS, France </li><br />
<li> Cyril Grouin, LIMSI - CNRS, France </li><br />
<li> Deepak Gupta, US National Library of Medicine </li><br />
<li> Thierry Hamon, LIMSI-CNRS, France </li><br />
<li> Yikun Han, University of Illinois, Urbana Champaign, USA </li><br />
<li> Keno Hanken, Independent Researcher, EU </li><br />
<li> Moustafa Hassan, Qatar University </li><br />
<li> Sam Henry, Christopher Newport University, USA </li><br />
<li> Ben Holgate, King's College London </li><br />
<li> Bahar Ilgen, Robert Koch Institute, Germany </li><br />
<li> Antonio Jimeno Yepes, RMIT, Australia </li><br />
Indika Kahanda, University of North Florida, USA </li><br />
<li> Vani Kanjirangat, IDSIA, Switzerland </li><br />
<li> Sarvnaz Karimi, CSIRO, Australia </li><br />
<li> Nazmul Kazi, Montana State University, USA </li><br />
<li> Halil Kilicoglu, University of Illinois at Urbana-Champaign </li><br />
<li> Won Gyu Kim, National Library of Medicine, USA </li><br />
<li> Ashwin Kirubakaran, Edison Academy Magnet School, New Jersey, USA </li><br />
<li> Gaurav Kumar, University of California San Diego USA </li><br />
<li> Thomas Labbe, Orange Research, USA </li><br />
<li> Andre Lamurias, University of Lisbon, Portugal </li><br />
<li> Vojtech Lanz, Charles University, Czech Republic </li><br />
<li> Majid Latifi, University of York, York, UK</li><br />
<li> Alberto Lavelli, FBK-ICT, Italy </li><br />
<li> Robert Leaman, US National Library of Medicine </li><br />
<li> Lung-Hao Lee, National Central University, Taiwan </li><br />
<li> Ulf Leser, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Yuan Liang, Queen Mary University of London </li><br />
<li> Siting Liang, German Research Center for Artificial Intelligence </li><br />
<li> Livia Lilli, Fondazione Policlinico Universitario Agostino Gemelli IRCCS and Catholic University of the Sacred Heart, Rome, Italy </li><br />
<li> Ying-Jia Lin, Chang Gung University, Taiwan </li><br />
<li> Jinghui Liu, CSIRO, Australia </li> <br />
<li> Fabien Maury, Inserm, Universite Paris Cite, France </li><br />
<li> Makoto Miwa, Toyota Technological Institute, Japan </li> <br />
<li> Rodrigo Morales-Sanchez, Universidad Nacional de Educacion a Distancia (UNED), Spain </li><br />
<li> Hyeonyeong Nam, Korea University, South Korea </li><br />
<li> Claire Nedellec, INRA, France </li><br />
<li> Guenter Neumann, DFKI, Saarland, Germany </li><br />
<li> Aurelie Neveol, LIMSI - CNRS, France </li><br />
<li> Brian Ondov, Yale University, USA </li><br />
<li> John E. Ortega, Northeastern University, Massachusetts, USA </li><br />
<li> Olga Pelloni, UiT The Arctic University of Norway </li><br />
<li> Noon Pokaratsiri Goldstein, DFKI, Germany </li><br />
<li> Juan Prieto, Universidad de Los Andes, Bogota, Colombia </li><br />
<li> Francois Remy, Ghent University, Belgium </li><br />
<li> Francisco J. Ribadas-Pena, University of Vigo, Spain </li><br />
<li> Fabio Rinaldi, IDSIA, Switzerland </li><br />
<li> Kirk Roberts, UTHealth, Houston, Texas, USA </li><br />
<li> Roland Roller, DFKI GmbH, Berlin, Germany </li><br />
<li> Mahule Roy, University of Oxford, UK </li><br />
<li> Nourah Salem, University of Colorado, USA </li><br />
<li> Vicente Ivan Sanchez Carmona, Ricoh Software Research Center (Beijing) Co., Ltd </li><br />
<li> Mustafa Sikder, U.S. Food and Drug Administration </li><br />
<li> Saurabh Singh, Oracle Health, USA </li><br />
<li> Ujjwal Singh, Max Healthcare Institute Limited, India </li><br />
<li> Sarvesh Soni, National Library of Medicine, USA </li> <br />
<li> Adam Sutton, King's College London, UK </li><br />
<li> Mario Sanger, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Sanya Taneja, Johnson and Johnson Innovative Medicine, USA </li><br />
<li> Karin Verspoor, RMIT University, Australia </li><br />
<li> Xing David Wang, Humboldt University of Berlin, Germany </li><br />
<li> Nathan M. White, James Cook University, Australia </li><br />
<li> Dongfang Xu, Cedars-Sinai, USA. </li><br />
<li> Ken Yano, The National Institute of Advanced Industrial Science and Technology (AIST), Japan </li><br />
<li> Hyunwoo Yoo, Drexel University, USA </li><br />
<li> Xiao Yu Cindy Zhang, University of British Columbia, Canada </li><br />
<li> Jingqing Zhang, Pangaea Data Limited, UK, USA </li><br />
<li> Angelo Ziletti, Bayer AG, Germany </li><br />
<li> Pierre Zweigenbaum, LIMSI - CNRS, France <br><br />
<br />
<b>Secondary Reviewers:</b><br />
<li> Wei-Chun Chen, Chang Gung University, Taiwan </li><br />
<li> Joseph Cornelius, Dalle Molle Institute for Artificial Intelligence Research -- IDSIA USI-SUPSI, Switzerland </li><br />
<li> Samuele Garda, Humboldt University of Berlin, Germany </li><br />
<li> Athlene Jones, University of North Florida, USA </li><br />
<li> Sangwoon LeeKorea University, South Korea </li><br />
<li> Hima Bindu Nandyala, SUNY Polytechnic Institute, USA </li><br />
<li> Oguz Serbetci, Humboldt University of Berlin, Germany </li><br />
<li> Vishwaa Shah, University of North Florida, USA </li><br />
<li> Mayank Nilesh Waghmare, SUNY Polytechnic Institute, USA </li><br />
<li> Zhangfei Yang, The George Washington University, USA </li><br />
</ul><br />
<br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14035BioNLP Workshop2026-07-03T13:53:10Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
<h3>Schedule</h3><br />
* [https://docs.google.com/document/d/1aGaDRmcGNPdeGZbO3dDglFA7zf9XYxqcli0POcCXVFk/edit?usp=sharing July 3 ]<br />
* [https://docs.google.com/document/d/1GHnmXhsumseG6Kxm6Vt8iCWSv9uxsEDZ/edit?usp=sharing&ouid=114874328739866572425&rtpof=true&sd=true July 4 ]<br />
<br />
===Message from Kev===<br />
<br />
Welcome to the 20th annual meeting of the ACL Special Interest Group on Biomedical Natural Language Processing. My name is Kevin Cohen. For 15 years I was the chair of our Special Interest Group, but today I serve in the Armed Forces of Ukraine. I have bad news for you, and I have good news. <br />
<br />
<br />
The bad news: as a volunteer in Ukraine, I have come to appreciate the fundamental injustice of paywalled scientific publications more than I ever could have before. Most advances in combat medicine are coming from the battlefield here. Working as a medic, I contributed plenty of data points to those papers. Having gotten seriously ill during deployments two times, I AM a couple of those data points. But, paywalls keep more than 50% of PubMed-indexed publications out of the reach of Ukrainian medics. People like you write, edit, and review those papers–for free. The publishers profit from them–from your sweat, and our blood. I have seen no improvement in the situation in the past four years. I hope that you will continue to work to change it.<br />
<br />
<br />
The good news: biomedical NLP seems to be in great shape! One of the great joys of my retirement was canceling my subscriptions to every f^^^ing mailing list I could think of. I did stay on one: the BioNLP mailing list. Watching the list, I see that our field continues to flourish. You might not believe that it can put a smile on my face in the middle of hell to see an announcement of a new shared task or workshop. But, it does! I have always loved the potential of biomedical natural language processing to reduce avoidable pain and suffering in the world. I still do. I wish you interesting results and a great workshop. <br />
<br />
<br />
Kev<br />
<br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
<br />
<h3>Program Committee</h3><br />
<ul><br />
<li> Abdulrahman AAl Abdulsalam, Sultan Qaboos University, Oman </li><br />
<li> Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK </li> <br />
<li> Rohit Agarwal, UiT The Arctic University of Norway </li><br />
<li> Aizierjiang Aiersilan, The George Washington University, USA </li><br />
<li> Ebrahim Alharbi The University of Sheffield, UK</li> <br />
<li> Daniel Andrade, Hiroshima University, Japan </li><br />
<li> Eiji Aramaki, University of Tokyo, Japan </li><br />
<li> Niloofar Arazkhani, University of Pittsburgh, USA </li><br />
<li> Steven Au, University of California, Santa Cruz, USA </li><br />
<li> Davis Bartels, National Library of Medicine, USA </li><br />
<li> Hadas Ben Atya, Technion -- Israel Institute of Technology, Haifa, Israel </li><br />
<li> Krushil Bhojani, SUNY Polytechnic Institute, USA </li><br />
<li> Madeline Bittner, National Library of Medicine, USA </li><br />
<li> Leandra Budau, Toronto Metropolitan University, Canada </li><br />
<li> Ioana Buhnila, Center for Data Science in Humanities, Chosun University, South Korea </li><br />
<li> Leonardo Campillos Llanos, Universidad Autonoma de Madrid, Spain </li><br />
<li> Liuliu Chen, University of Melbourne, Australia </li><br />
<li> Brandon Colelough, National Library of Medicine, USA </li><br />
<li> Brian Connolly, Cincinnati Children's Hospital Medical Center , USA </li><br />
<li> An Dao, The University of Tokyo, Japan </li><br />
<li> Dina Demner-Fushman, National Library of Medicine, USA </li><br />
<li> Oumaima El Khettarim Aix-Marseille University, France </li><br />
<li> Mohamed Elmofty, Humboldt University of Berlin, Germany </li><br />
<li> Pietro Ferrazzi, Fondazione Bruno Kessler - University of Padova, Italy </li><br />
<li> Kathleen C. Fraser, National Research Council Canada </li><br />
<li> Natalia Grabar, CNRS, France </li><br />
<li> Cyril Grouin, LIMSI - CNRS, France </li><br />
<li> Deepak Gupta, US National Library of Medicine </li><br />
<li> Thierry Hamon, LIMSI-CNRS, France </li><br />
<li> Yikun Han, University of Illinois, Urbana Champaign, USA </li><br />
<li> Keno Hanken, Independent Researcher, EU </li><br />
<li> Moustafa Hassan, Qatar University </li><br />
<li> Sam Henry, Christopher Newport University, USA </li><br />
<li> Ben Holgate, King's College London </li><br />
<li> Bahar Ilgen, Robert Koch Institute, Germany </li><br />
<li> Antonio Jimeno Yepes, RMIT, Australia </li><br />
Indika Kahanda, University of North Florida, USA </li><br />
<li> Vani Kanjirangat, IDSIA, Switzerland </li><br />
<li> Sarvnaz Karimi, CSIRO, Australia </li><br />
<li> Nazmul Kazi, Montana State University, USA </li><br />
<li> Halil Kilicoglu, University of Illinois at Urbana-Champaign </li><br />
<li> Won Gyu Kim, National Library of Medicine, USA </li><br />
<li> Ashwin Kirubakaran, Edison Academy Magnet School, New Jersey, USA </li><br />
<li> Gaurav Kumar, University of California San Diego USA </li><br />
<li> Thomas Labbe, Orange Research, USA </li><br />
<li> Andre Lamurias, University of Lisbon, Portugal </li><br />
<li> Vojtech Lanz, Charles University, Czech Republic </li><br />
<li> Majid Latifi, University of York, York, UK</li><br />
<li> Alberto Lavelli, FBK-ICT, Italy </li><br />
<li> Robert Leaman, US National Library of Medicine </li><br />
<li> Lung-Hao Lee, National Central University, Taiwan </li><br />
<li> Ulf Leser, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Yuan Liang, Queen Mary University of London </li><br />
<li> Siting Liang, German Research Center for Artificial Intelligence </li><br />
<li> Livia Lilli, Fondazione Policlinico Universitario Agostino Gemelli IRCCS and Catholic University of the Sacred Heart, Rome, Italy </li><br />
<li> Ying-Jia Lin, Chang Gung University, Taiwan </li><br />
<li> Jinghui Liu, CSIRO, Australia </li> <br />
<li> Fabien Maury, Inserm, Universite Paris Cite, France </li><br />
<li> Makoto Miwa, Toyota Technological Institute, Japan </li> <br />
<li> Rodrigo Morales-Sanchez, Universidad Nacional de Educacion a Distancia (UNED), Spain </li><br />
<li> Hyeonyeong Nam, Korea University, South Korea </li><br />
<li> Claire Nedellec, INRA, France </li><br />
<li> Guenter Neumann, DFKI, Saarland, Germany </li><br />
<li> Aurelie Neveol, LIMSI - CNRS, France </li><br />
<li> Brian Ondov, Yale University, USA </li><br />
<li> John E. Ortega, Northeastern University, Massachusetts, USA </li><br />
<li> Olga Pelloni, UiT The Arctic University of Norway </li><br />
<li> Noon Pokaratsiri Goldstein, DFKI, Germany </li><br />
<li> Juan Prieto, Universidad de Los Andes, Bogota, Colombia </li><br />
<li> Francois Remy, Ghent University, Belgium </li><br />
<li> Francisco J. Ribadas-Pena, University of Vigo, Spain </li><br />
<li> Fabio Rinaldi, IDSIA, Switzerland </li><br />
<li> Kirk Roberts, UTHealth, Houston, Texas, USA </li><br />
<li> Roland Roller, DFKI GmbH, Berlin, Germany </li><br />
<li> Mahule Roy, University of Oxford, UK </li><br />
<li> Nourah Salem, University of Colorado, USA </li><br />
<li> Vicente Ivan Sanchez Carmona, Ricoh Software Research Center (Beijing) Co., Ltd </li><br />
<li> Mustafa Sikder, U.S. Food and Drug Administration </li><br />
<li> Saurabh Singh, Oracle Health, USA </li><br />
<li> Ujjwal Singh, Max Healthcare Institute Limited, India </li><br />
<li> Sarvesh Soni, National Library of Medicine, USA </li> <br />
<li> Adam Sutton, King's College London, UK </li><br />
<li> Mario Sanger, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Sanya Taneja, Johnson and Johnson Innovative Medicine, USA </li><br />
<li> Karin Verspoor, RMIT University, Australia </li><br />
<li> Xing David Wang, Humboldt University of Berlin, Germany </li><br />
<li> Nathan M. White, James Cook University, Australia </li><br />
<li> Dongfang Xu, Cedars-Sinai, USA. </li><br />
<li> Ken Yano, The National Institute of Advanced Industrial Science and Technology (AIST), Japan </li><br />
<li> Hyunwoo Yoo, Drexel University, USA </li><br />
<li> Xiao Yu Cindy Zhang, University of British Columbia, Canada </li><br />
<li> Jingqing Zhang, Pangaea Data Limited, UK, USA </li><br />
<li> Angelo Ziletti, Bayer AG, Germany </li><br />
<li> Pierre Zweigenbaum, LIMSI - CNRS, France <br><br />
<br />
<b>Secondary Reviewers:</b><br />
<li> Wei-Chun Chen, Chang Gung University, Taiwan </li><br />
<li> Joseph Cornelius, Dalle Molle Institute for Artificial Intelligence Research -- IDSIA USI-SUPSI, Switzerland </li><br />
<li> Samuele Garda, Humboldt University of Berlin, Germany </li><br />
<li> Athlene Jones, University of North Florida, USA </li><br />
<li> Sangwoon LeeKorea University, South Korea </li><br />
<li> Hima Bindu Nandyala, SUNY Polytechnic Institute, USA </li><br />
<li> Oguz Serbetci, Humboldt University of Berlin, Germany </li><br />
<li> Vishwaa Shah, University of North Florida, USA </li><br />
<li> Mayank Nilesh Waghmare, SUNY Polytechnic Institute, USA </li><br />
<li> Zhangfei Yang, The George Washington University, USA </li><br />
</ul><br />
<br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=14032SIGBIOMED2026-06-25T20:08:47Z<p>Dina: /* Past Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.<br />
<br />
<!-- <div> Election of SIG Officers </div><br />
<div> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
== Upcoming Events ==<br />
<br />
[[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 3 - 4, 2026, San Diego, CA, USA<br />
<br />
== Past Events ==<br />
<div> [https://bionlp.nlm.nih.gov/cl4health2026/ CL4Health 2026]. Patient-oriented language processing at [https://lrec2026.info/ LREC 2026], May 2026, Palma de Mallorca, Spain</div><br />
<div> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025, Albuquerque, New Mexico </div><br />
<div> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<!-- <div> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div> --><br />
<br />
<table border="0"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
* [[SIGBioMed constitution|BioMed SIG Constitution ]]<br />
* [[SigBioMed_officers|Officers and Membership information]]<br />
* [[Sigbiomed_members|The SIGBioMed organizing committee and members]] <br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<br />
<ul><br />
<br />
<li>[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li>[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li>[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li>[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li>[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li>[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li>[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li>[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li>[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li>[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li>[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li>[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li>[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14024BioNLP Workshop2026-06-24T18:42:47Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
<h3>Schedule</h3><br />
* [https://docs.google.com/document/d/1aGaDRmcGNPdeGZbO3dDglFA7zf9XYxqcli0POcCXVFk/edit?usp=sharing July 3 ]<br />
* [https://docs.google.com/document/d/1GHnmXhsumseG6Kxm6Vt8iCWSv9uxsEDZ/edit?usp=sharing&ouid=114874328739866572425&rtpof=true&sd=true July 4 ]<br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
<br />
<h3>Program Committee</h3><br />
<ul><br />
<li> Abdulrahman AAl Abdulsalam, Sultan Qaboos University, Oman </li><br />
<li> Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK </li> <br />
<li> Rohit Agarwal, UiT The Arctic University of Norway </li><br />
<li> Aizierjiang Aiersilan, The George Washington University, USA </li><br />
<li> Ebrahim Alharbi The University of Sheffield, UK</li> <br />
<li> Daniel Andrade, Hiroshima University, Japan </li><br />
<li> Eiji Aramaki, University of Tokyo, Japan </li><br />
<li> Niloofar Arazkhani, University of Pittsburgh, USA </li><br />
<li> Steven Au, University of California, Santa Cruz, USA </li><br />
<li> Davis Bartels, National Library of Medicine, USA </li><br />
<li> Hadas Ben Atya, Technion -- Israel Institute of Technology, Haifa, Israel </li><br />
<li> Krushil Bhojani, SUNY Polytechnic Institute, USA </li><br />
<li> Madeline Bittner, National Library of Medicine, USA </li><br />
<li> Leandra Budau, Toronto Metropolitan University, Canada </li><br />
<li> Ioana Buhnila, Center for Data Science in Humanities, Chosun University, South Korea </li><br />
<li> Leonardo Campillos Llanos, Universidad Autonoma de Madrid, Spain </li><br />
<li> Liuliu Chen, University of Melbourne, Australia </li><br />
<li> Brandon Colelough, National Library of Medicine, USA </li><br />
<li> Brian Connolly, Cincinnati Children's Hospital Medical Center , USA </li><br />
<li> An Dao, The University of Tokyo, Japan </li><br />
<li> Dina Demner-Fushman, National Library of Medicine, USA </li><br />
<li> Oumaima El Khettarim Aix-Marseille University, France </li><br />
<li> Mohamed Elmofty, Humboldt University of Berlin, Germany </li><br />
<li> Pietro Ferrazzi, Fondazione Bruno Kessler - University of Padova, Italy </li><br />
<li> Kathleen C. Fraser, National Research Council Canada </li><br />
<li> Natalia Grabar, CNRS, France </li><br />
<li> Cyril Grouin, LIMSI - CNRS, France </li><br />
<li> Deepak Gupta, US National Library of Medicine </li><br />
<li> Thierry Hamon, LIMSI-CNRS, France </li><br />
<li> Yikun Han, University of Illinois, Urbana Champaign, USA </li><br />
<li> Keno Hanken, Independent Researcher, EU </li><br />
<li> Moustafa Hassan, Qatar University </li><br />
<li> Sam Henry, Christopher Newport University, USA </li><br />
<li> Ben Holgate, King's College London </li><br />
<li> Bahar Ilgen, Robert Koch Institute, Germany </li><br />
<li> Antonio Jimeno Yepes, RMIT, Australia </li><br />
Indika Kahanda, University of North Florida, USA </li><br />
<li> Vani Kanjirangat, IDSIA, Switzerland </li><br />
<li> Sarvnaz Karimi, CSIRO, Australia </li><br />
<li> Nazmul Kazi, Montana State University, USA </li><br />
<li> Halil Kilicoglu, University of Illinois at Urbana-Champaign </li><br />
<li> Won Gyu Kim, National Library of Medicine, USA </li><br />
<li> Ashwin Kirubakaran, Edison Academy Magnet School, New Jersey, USA </li><br />
<li> Gaurav Kumar, University of California San Diego USA </li><br />
<li> Thomas Labbe, Orange Research, USA </li><br />
<li> Andre Lamurias, University of Lisbon, Portugal </li><br />
<li> Vojtech Lanz, Charles University, Czech Republic </li><br />
<li> Majid Latifi, University of York, York, UK</li><br />
<li> Alberto Lavelli, FBK-ICT, Italy </li><br />
<li> Robert Leaman, US National Library of Medicine </li><br />
<li> Lung-Hao Lee, National Central University, Taiwan </li><br />
<li> Ulf Leser, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Yuan Liang, Queen Mary University of London </li><br />
<li> Siting Liang, German Research Center for Artificial Intelligence </li><br />
<li> Livia Lilli, Fondazione Policlinico Universitario Agostino Gemelli IRCCS and Catholic University of the Sacred Heart, Rome, Italy </li><br />
<li> Ying-Jia Lin, Chang Gung University, Taiwan </li><br />
<li> Jinghui Liu, CSIRO, Australia </li> <br />
<li> Fabien Maury, Inserm, Universite Paris Cite, France </li><br />
<li> Makoto Miwa, Toyota Technological Institute, Japan </li> <br />
<li> Rodrigo Morales-Sanchez, Universidad Nacional de Educacion a Distancia (UNED), Spain </li><br />
<li> Hyeonyeong Nam, Korea University, South Korea </li><br />
<li> Claire Nedellec, INRA, France </li><br />
<li> Guenter Neumann, DFKI, Saarland, Germany </li><br />
<li> Aurelie Neveol, LIMSI - CNRS, France </li><br />
<li> Brian Ondov, Yale University, USA </li><br />
<li> John E. Ortega, Northeastern University, Massachusetts, USA </li><br />
<li> Olga Pelloni, UiT The Arctic University of Norway </li><br />
<li> Noon Pokaratsiri Goldstein, DFKI, Germany </li><br />
<li> Juan Prieto, Universidad de Los Andes, Bogota, Colombia </li><br />
<li> Francois Remy, Ghent University, Belgium </li><br />
<li> Francisco J. Ribadas-Pena, University of Vigo, Spain </li><br />
<li> Fabio Rinaldi, IDSIA, Switzerland </li><br />
<li> Kirk Roberts, UTHealth, Houston, Texas, USA </li><br />
<li> Roland Roller, DFKI GmbH, Berlin, Germany </li><br />
<li> Mahule Roy, University of Oxford, UK </li><br />
<li> Nourah Salem, University of Colorado, USA </li><br />
<li> Vicente Ivan Sanchez Carmona, Ricoh Software Research Center (Beijing) Co., Ltd </li><br />
<li> Mustafa Sikder, U.S. Food and Drug Administration </li><br />
<li> Saurabh Singh, Oracle Health, USA </li><br />
<li> Ujjwal Singh, Max Healthcare Institute Limited, India </li><br />
<li> Sarvesh Soni, National Library of Medicine, USA </li> <br />
<li> Adam Sutton, King's College London, UK </li><br />
<li> Mario Sanger, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Sanya Taneja, Johnson and Johnson Innovative Medicine, USA </li><br />
<li> Karin Verspoor, RMIT University, Australia </li><br />
<li> Xing David Wang, Humboldt University of Berlin, Germany </li><br />
<li> Nathan M. White, James Cook University, Australia </li><br />
<li> Dongfang Xu, Cedars-Sinai, USA. </li><br />
<li> Ken Yano, The National Institute of Advanced Industrial Science and Technology (AIST), Japan </li><br />
<li> Hyunwoo Yoo, Drexel University, USA </li><br />
<li> Xiao Yu Cindy Zhang, University of British Columbia, Canada </li><br />
<li> Jingqing Zhang, Pangaea Data Limited, UK, USA </li><br />
<li> Angelo Ziletti, Bayer AG, Germany </li><br />
<li> Pierre Zweigenbaum, LIMSI - CNRS, France <br><br />
<br />
<b>Secondary Reviewers:</b><br />
<li> Wei-Chun Chen, Chang Gung University, Taiwan </li><br />
<li> Joseph Cornelius, Dalle Molle Institute for Artificial Intelligence Research -- IDSIA USI-SUPSI, Switzerland </li><br />
<li> Samuele Garda, Humboldt University of Berlin, Germany </li><br />
<li> Athlene Jones, University of North Florida, USA </li><br />
<li> Sangwoon LeeKorea University, South Korea </li><br />
<li> Hima Bindu Nandyala, SUNY Polytechnic Institute, USA </li><br />
<li> Oguz Serbetci, Humboldt University of Berlin, Germany </li><br />
<li> Vishwaa Shah, University of North Florida, USA </li><br />
<li> Mayank Nilesh Waghmare, SUNY Polytechnic Institute, USA </li><br />
<li> Zhangfei Yang, The George Washington University, USA </li><br />
</ul><br />
<br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=14022SIGBIOMED2026-06-01T14:27:02Z<p>Dina: /* Upcoming Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
[[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 3 - 4, 2026, San Diego, CA, USA<br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=14021SIGBIOMED2026-06-01T14:25:23Z<p>Dina: /* Upcoming Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14020BioNLP Workshop2026-06-01T09:30:30Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
<h3>Program Committee</h3><br />
<ul><br />
<li> Abdulrahman AAl Abdulsalam, Sultan Qaboos University, Oman </li><br />
<li> Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK </li> <br />
<li> Rohit Agarwal, UiT The Arctic University of Norway </li><br />
<li> Aizierjiang Aiersilan, The George Washington University, USA </li><br />
<li> Ebrahim Alharbi The University of Sheffield, UK</li> <br />
<li> Daniel Andrade, Hiroshima University, Japan </li><br />
<li> Eiji Aramaki, University of Tokyo, Japan </li><br />
<li> Niloofar Arazkhani, University of Pittsburgh, USA </li><br />
<li> Steven Au, University of California, Santa Cruz, USA </li><br />
<li> Davis Bartels, National Library of Medicine, USA </li><br />
<li> Hadas Ben Atya, Technion -- Israel Institute of Technology, Haifa, Israel </li><br />
<li> Krushil Bhojani, SUNY Polytechnic Institute, USA </li><br />
<li> Madeline Bittner, National Library of Medicine, USA </li><br />
<li> Leandra Budau, Toronto Metropolitan University, Canada </li><br />
<li> Ioana Buhnila, Center for Data Science in Humanities, Chosun University, South Korea </li><br />
<li> Leonardo Campillos Llanos, Universidad Autonoma de Madrid, Spain </li><br />
<li> Liuliu Chen, University of Melbourne, Australia </li><br />
<li> Brandon Colelough, National Library of Medicine, USA </li><br />
<li> Brian Connolly, Cincinnati Children's Hospital Medical Center , USA </li><br />
<li> An Dao, The University of Tokyo, Japan </li><br />
<li> Dina Demner-Fushman, National Library of Medicine, USA </li><br />
<li> Oumaima El Khettarim Aix-Marseille University, France </li><br />
<li> Mohamed Elmofty, Humboldt University of Berlin, Germany </li><br />
<li> Pietro Ferrazzi, Fondazione Bruno Kessler - University of Padova, Italy </li><br />
<li> Kathleen C. Fraser, National Research Council Canada </li><br />
<li> Natalia Grabar, CNRS, France </li><br />
<li> Cyril Grouin, LIMSI - CNRS, France </li><br />
<li> Deepak Gupta, US National Library of Medicine </li><br />
<li> Thierry Hamon, LIMSI-CNRS, France </li><br />
<li> Yikun Han, University of Illinois, Urbana Champaign, USA </li><br />
<li> Keno Hanken, Independent Researcher, EU </li><br />
<li> Moustafa Hassan, Qatar University </li><br />
<li> Sam Henry, Christopher Newport University, USA </li><br />
<li> Ben Holgate, King's College London </li><br />
<li> Bahar Ilgen, Robert Koch Institute, Germany </li><br />
<li> Antonio Jimeno Yepes, RMIT, Australia </li><br />
Indika Kahanda, University of North Florida, USA </li><br />
<li> Vani Kanjirangat, IDSIA, Switzerland </li><br />
<li> Sarvnaz Karimi, CSIRO, Australia </li><br />
<li> Nazmul Kazi, Montana State University, USA </li><br />
<li> Halil Kilicoglu, University of Illinois at Urbana-Champaign </li><br />
<li> Won Gyu Kim, National Library of Medicine, USA </li><br />
<li> Ashwin Kirubakaran, Edison Academy Magnet School, New Jersey, USA </li><br />
<li> Gaurav Kumar, University of California San Diego USA </li><br />
<li> Thomas Labbe, Orange Research, USA </li><br />
<li> Andre Lamurias, University of Lisbon, Portugal </li><br />
<li> Vojtech Lanz, Charles University, Czech Republic </li><br />
<li> Majid Latifi, University of York, York, UK</li><br />
<li> Alberto Lavelli, FBK-ICT, Italy </li><br />
<li> Robert Leaman, US National Library of Medicine </li><br />
<li> Lung-Hao Lee, National Central University, Taiwan </li><br />
<li> Ulf Leser, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Yuan Liang, Queen Mary University of London </li><br />
<li> Siting Liang, German Research Center for Artificial Intelligence </li><br />
<li> Livia Lilli, Fondazione Policlinico Universitario Agostino Gemelli IRCCS and Catholic University of the Sacred Heart, Rome, Italy </li><br />
<li> Ying-Jia Lin, Chang Gung University, Taiwan </li><br />
<li> Jinghui Liu, CSIRO, Australia </li> <br />
<li> Fabien Maury, Inserm, Universite Paris Cite, France </li><br />
<li> Makoto Miwa, Toyota Technological Institute, Japan </li> <br />
<li> Rodrigo Morales-Sanchez, Universidad Nacional de Educacion a Distancia (UNED), Spain </li><br />
<li> Hyeonyeong Nam, Korea University, South Korea </li><br />
<li> Claire Nedellec, INRA, France </li><br />
<li> Guenter Neumann, DFKI, Saarland, Germany </li><br />
<li> Aurelie Neveol, LIMSI - CNRS, France </li><br />
<li> Brian Ondov, Yale University, USA </li><br />
<li> John E. Ortega, Northeastern University, Massachusetts, USA </li><br />
<li> Olga Pelloni, UiT The Arctic University of Norway </li><br />
<li> Noon Pokaratsiri Goldstein, DFKI, Germany </li><br />
<li> Juan Prieto, Universidad de Los Andes, Bogota, Colombia </li><br />
<li> Francois Remy, Ghent University, Belgium </li><br />
<li> Francisco J. Ribadas-Pena, University of Vigo, Spain </li><br />
<li> Fabio Rinaldi, IDSIA, Switzerland </li><br />
<li> Kirk Roberts, UTHealth, Houston, Texas, USA </li><br />
<li> Roland Roller, DFKI GmbH, Berlin, Germany </li><br />
<li> Mahule Roy, University of Oxford, UK </li><br />
<li> Nourah Salem, University of Colorado, USA </li><br />
<li> Vicente Ivan Sanchez Carmona, Ricoh Software Research Center (Beijing) Co., Ltd </li><br />
<li> Mustafa Sikder, U.S. Food and Drug Administration </li><br />
<li> Saurabh Singh, Oracle Health, USA </li><br />
<li> Ujjwal Singh, Max Healthcare Institute Limited, India </li><br />
<li> Sarvesh Soni, National Library of Medicine, USA </li> <br />
<li> Adam Sutton, King's College London, UK </li><br />
<li> Mario Sanger, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Sanya Taneja, Johnson and Johnson Innovative Medicine, USA </li><br />
<li> Karin Verspoor, RMIT University, Australia </li><br />
<li> Xing David Wang, Humboldt University of Berlin, Germany </li><br />
<li> Nathan M. White, James Cook University, Australia </li><br />
<li> Dongfang Xu, Cedars-Sinai, USA. </li><br />
<li> Ken Yano, The National Institute of Advanced Industrial Science and Technology (AIST), Japan </li><br />
<li> Hyunwoo Yoo, Drexel University, USA </li><br />
<li> Xiao Yu Cindy Zhang, University of British Columbia, Canada </li><br />
<li> Jingqing Zhang, Pangaea Data Limited, UK, USA </li><br />
<li> Angelo Ziletti, Bayer AG, Germany </li><br />
<li> Pierre Zweigenbaum, LIMSI - CNRS, France <br><br />
<br />
<b>Secondary Reviewers:</b><br />
<li> Wei-Chun Chen, Chang Gung University, Taiwan </li><br />
<li> Joseph Cornelius, Dalle Molle Institute for Artificial Intelligence Research -- IDSIA USI-SUPSI, Switzerland </li><br />
<li> Samuele Garda, Humboldt University of Berlin, Germany </li><br />
<li> Athlene Jones, University of North Florida, USA </li><br />
<li> Sangwoon LeeKorea University, South Korea </li><br />
<li> Hima Bindu Nandyala, SUNY Polytechnic Institute, USA </li><br />
<li> Oguz Serbetci, Humboldt University of Berlin, Germany </li><br />
<li> Vishwaa Shah, University of North Florida, USA </li><br />
<li> Mayank Nilesh Waghmare, SUNY Polytechnic Institute, USA </li><br />
<li> Zhangfei Yang, The George Washington University, USA </li><br />
</ul><br />
<br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14019BioNLP Workshop2026-06-01T09:29:29Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
<h4>Program Committee</h4><br />
<ul><br />
<li> Abdulrahman AAl Abdulsalam, Sultan Qaboos University, Oman </li><br />
<li> Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK </li> <br />
<li> Rohit Agarwal, UiT The Arctic University of Norway </li><br />
<li> Aizierjiang Aiersilan, The George Washington University, USA </li><br />
<li> Ebrahim Alharbi The University of Sheffield, UK</li> <br />
<li> Daniel Andrade, Hiroshima University, Japan </li><br />
<li> Eiji Aramaki, University of Tokyo, Japan </li><br />
<li> Niloofar Arazkhani, University of Pittsburgh, USA </li><br />
<li> Steven Au, University of California, Santa Cruz, USA </li><br />
<li> Davis Bartels, National Library of Medicine, USA </li><br />
<li> Hadas Ben Atya, Technion -- Israel Institute of Technology, Haifa, Israel </li><br />
<li> Krushil Bhojani, SUNY Polytechnic Institute, USA </li><br />
<li> Madeline Bittner, National Library of Medicine, USA </li><br />
<li> Leandra Budau, Toronto Metropolitan University, Canada </li><br />
<li> Ioana Buhnila, Center for Data Science in Humanities, Chosun University, South Korea </li><br />
<li> Leonardo Campillos Llanos, Universidad Autonoma de Madrid, Spain </li><br />
<li> Liuliu Chen, University of Melbourne, Australia </li><br />
<li> Brandon Colelough, National Library of Medicine, USA </li><br />
<li> Brian Connolly, Cincinnati Children's Hospital Medical Center , USA </li><br />
<li> An Dao, The University of Tokyo, Japan </li><br />
<li> Dina Demner-Fushman, National Library of Medicine, USA </li><br />
<li> Oumaima El Khettarim Aix-Marseille University, France </li><br />
<li> Mohamed Elmofty, Humboldt University of Berlin, Germany </li><br />
<li> Pietro Ferrazzi, Fondazione Bruno Kessler - University of Padova, Italy </li><br />
<li> Kathleen C. Fraser, National Research Council Canada </li><br />
<li> Natalia Grabar, CNRS, France </li><br />
<li> Cyril Grouin, LIMSI - CNRS, France </li><br />
<li> Deepak Gupta, US National Library of Medicine </li><br />
<li> Thierry Hamon, LIMSI-CNRS, France </li><br />
<li> Yikun Han, University of Illinois, Urbana Champaign, USA </li><br />
<li> Keno Hanken, Independent Researcher, EU </li><br />
<li> Moustafa Hassan, Qatar University </li><br />
<li> Sam Henry, Christopher Newport University, USA </li><br />
<li> Ben Holgate, King's College London </li><br />
<li> Bahar Ilgen, Robert Koch Institute, Germany </li><br />
<li> Antonio Jimeno Yepes, RMIT, Australia </li><br />
Indika Kahanda, University of North Florida, USA </li><br />
<li> Vani Kanjirangat, IDSIA, Switzerland </li><br />
<li> Sarvnaz Karimi, CSIRO, Australia </li><br />
<li> Nazmul Kazi, Montana State University, USA </li><br />
<li> Halil Kilicoglu, University of Illinois at Urbana-Champaign </li><br />
<li> Won Gyu Kim, National Library of Medicine, USA </li><br />
<li> Ashwin Kirubakaran, Edison Academy Magnet School, New Jersey, USA </li><br />
<li> Gaurav Kumar, University of California San Diego USA </li><br />
<li> Thomas Labbe, Orange Research, USA </li><br />
<li> Andre Lamurias, University of Lisbon, Portugal </li><br />
<li> Vojtech Lanz, Charles University, Czech Republic </li><br />
<li> Majid Latifi, University of York, York, UK</li><br />
<li> Alberto Lavelli, FBK-ICT, Italy </li><br />
<li> Robert Leaman, US National Library of Medicine </li><br />
<li> Lung-Hao Lee, National Central University, Taiwan </li><br />
<li> Ulf Leser, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Yuan Liang, Queen Mary University of London </li><br />
<li> Siting Liang, German Research Center for Artificial Intelligence </li><br />
<li> Livia Lilli, Fondazione Policlinico Universitario Agostino Gemelli IRCCS and Catholic University of the Sacred Heart, Rome, Italy </li><br />
<li> Ying-Jia Lin, Chang Gung University, Taiwan </li><br />
<li> Jinghui Liu, CSIRO, Australia </li> <br />
<li> Fabien Maury, Inserm, Universite Paris Cite, France </li><br />
<li> Makoto Miwa, Toyota Technological Institute, Japan </li> <br />
<li> Rodrigo Morales-Sanchez, Universidad Nacional de Educacion a Distancia (UNED), Spain </li><br />
<li> Hyeonyeong Nam, Korea University, South Korea </li><br />
<li> Claire Nedellec, INRA, France </li><br />
<li> Guenter Neumann, DFKI, Saarland, Germany </li><br />
<li> Aurelie Neveol, LIMSI - CNRS, France </li><br />
<li> Brian Ondov, Yale University, USA </li><br />
<li> John E. Ortega, Northeastern University, Massachusetts, USA </li><br />
<li> Olga Pelloni, UiT The Arctic University of Norway </li><br />
<li> Noon Pokaratsiri Goldstein, DFKI, Germany </li><br />
<li> Juan Prieto, Universidad de Los Andes, Bogota, Colombia </li><br />
<li> Francois Remy, Ghent University, Belgium </li><br />
<li> Francisco J. Ribadas-Pena, University of Vigo, Spain </li><br />
<li> Fabio Rinaldi, IDSIA, Switzerland </li><br />
<li> Kirk Roberts, UTHealth, Houston, Texas, USA </li><br />
<li> Roland Roller, DFKI GmbH, Berlin, Germany </li><br />
<li> Mahule Roy, University of Oxford, UK </li><br />
<li> Nourah Salem, University of Colorado, USA </li><br />
<li> Vicente Ivan Sanchez Carmona, Ricoh Software Research Center (Beijing) Co., Ltd </li><br />
<li> Mustafa Sikder, U.S. Food and Drug Administration </li><br />
<li> Saurabh Singh, Oracle Health, USA </li><br />
<li> Ujjwal Singh, Max Healthcare Institute Limited, India </li><br />
<li> Sarvesh Soni, National Library of Medicine, USA </li> <br />
<li> Adam Sutton, King's College London, UK </li><br />
<li> Mario Sanger, Humboldt Universitat zu Berlin, Germany </li><br />
<li> Sanya Taneja, Johnson and Johnson Innovative Medicine, USA </li><br />
<li> Karin Verspoor, RMIT University, Australia </li><br />
<li> Xing David Wang, Humboldt University of Berlin, Germany </li><br />
<li> Nathan M. White, James Cook University, Australia </li><br />
<li> Dongfang Xu, Cedars-Sinai, USA. </li><br />
<li> Ken Yano, The National Institute of Advanced Industrial Science and Technology (AIST), Japan </li><br />
<li> Hyunwoo Yoo, Drexel University, USA </li><br />
<li> Xiao Yu Cindy Zhang, University of British Columbia, Canada </li><br />
<li> Jingqing Zhang, Pangaea Data Limited, UK, USA </li><br />
<li> Angelo Ziletti, Bayer AG, Germany </li><br />
<li> Pierre Zweigenbaum, LIMSI - CNRS, France <br><br />
<br />
<b>Secondary Reviewers:</b><br />
<li> Wei-Chun Chen, Chang Gung University, Taiwan </li><br />
<li> Joseph Cornelius, Dalle Molle Institute for Artificial Intelligence Research -- IDSIA USI-SUPSI, Switzerland </li><br />
<li> Samuele Garda, Humboldt University of Berlin, Germany </li><br />
<li> Athlene Jones, University of North Florida, USA </li><br />
<li> Sangwoon LeeKorea University, South Korea </li><br />
<li> Hima Bindu Nandyala, SUNY Polytechnic Institute, USA </li><br />
<li> Oguz Serbetci, Humboldt University of Berlin, Germany </li><br />
<li> Vishwaa Shah, University of North Florida, USA </li><br />
<li> Mayank Nilesh Waghmare, SUNY Polytechnic Institute, USA </li><br />
<li> Zhangfei Yang, The George Washington University, USA </li><br />
</ul><br />
<br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14018BioNLP Workshop2026-05-25T03:19:29Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14017BioNLP Workshop2026-05-25T02:57:07Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
[[July 3 schedule]]<br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14016BioNLP Workshop2026-05-18T05:04:05Z<p>Dina: /* SUBMISSION INSTRUCTIONS */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. THE FINAL VERSIONS FOLLOW ACL RULES on +1 page. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14013BioNLP Workshop2026-05-09T22:24:11Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
<br />
===Invited Talk===<br />
<br />
<h4>Annika Marie Schoene, PhD, Assistant Professor, Bouvé College of Health Sciences </h4><br />
<br />
<h4>AI Safety in Healthcare : Ethical and Technical Considerations</h4><br />
<br />
<p>Abstract: The rapid integration of artificial intelligence into healthcare, spanning ambient documentation, virtual nursing, and medical imaging, has outpaced the development of robust oversight mechanisms. While the global AI-in-healthcare market is projected to exceed $868 billion by 2030, incidents of algorithmic bias and unequal care delivery have exposed significant gaps between responsible AI principles and clinical implementation. This talk examines AI safety as a foundational pillar of responsible AI in health contexts, arguing that fairness, transparency, accountability, and human autonomy cannot remain aspirational without corresponding technical and governance infrastructure. I survey existing frameworks and identify a critical missing layer of concrete, operationalizable evaluation methods that bridge ethical principles and technical practice. To address this gap, I present work toward an actionable framework for responsible AI integration in clinical settings, grounded in the AI Ethics Box, a structured taxonomy derived from biomedical ethics. The framework maps ethical domains to specific technical tests, supporting both pre- and post-deployment evaluation. I also describe an ongoing co-design process with clinical and community stakeholders to ensure real-world feasibility. I conclude that AI in healthcare demands genuinely interdisciplinary research to build tools that improve health outcomes without compromising patient safety.</p><br />
<br />
<p>Biography: Annika Marie Schoene, PhD is a computer scientist and researcher in AI safety, working on the evaluation, robustness, and security of large-scale AI systems, including large language models. She develops technical methods and evaluation frameworks to identify and mitigate high-risk behaviors such as jailbreaks, harmful outputs, and unsafe system behavior, with the goal of enabling the safe and trustworthy deployment of AI in public health, health systems, and healthcare settings. She is currently an Assistant Professor in the Department of Public Health and Health Sciences and Technical Lead for the Responsible AI Practice at Northeastern University. Beyond her core research, she works across academic, industry, public-sector and not-for-profit settings to generate evidence that supports non-technical stakeholders and policymakers in making informed decisions that reduce algorithmic harm and inform organizational decision-making. She is also a Visiting Scientist at MaineHealth and the University of Southampton (UK), and a Faculty Fellow at the Institute for Social Justice and Healthy Equity, and serve as a Scientific Expert Advisor at Meta on AI safety. She holds a PhD in Computer Science from the University of Hull (UK). During her doctoral training, she conducted research on machine and deep learning methods for analyzing complex real-world text and interned at IBM Research (UK), continuing this collaboration throughout her PhD and postdoctoral work. She completed her postdoctoral training at the University of Manchester’s National Centre for Text Mining (NaCTeM), where she worked on natural language processing in health-related contexts. Prior to her current role, she was a Research Scientist at the Institute for Experiential AI (EAI), working primarily on research involving the development and evaluation of AI methods in applied health contexts.</p><br />
<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14010BioNLP Workshop2026-05-01T10:31:20Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 8 (Friday), 2026<br />
* Camera-ready paper due: May 19 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14009BioNLP Workshop2026-04-29T13:43:33Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 6 (Wednesday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14008BioNLP Workshop2026-04-20T21:45:58Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Pre-recorded video due (hard deadline): June 4, 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=14001BioNLP Workshop2026-04-17T21:01:51Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: <s>April 17 (Friday)</s> April 20, Monday, 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13994SIGBIOMED2026-02-27T20:01:20Z<p>Dina: /* Upcoming Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
[https://bionlp.nlm.nih.gov/cl4health2026/ CL4Health 2026]. Patient-oriented language processing at [https://www.elra.info/lrec2026/ LREC 2026], May 12 2026, Palma de Mallorca, Spain </div><br />
<br />
<br />
[[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 3 - 4, 2026, San Diego, CA, USA<br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13993BioNLP Workshop2026-02-27T19:59:45Z<p>Dina: /* IMPORTANT DATES */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 - 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13992BioNLP Workshop2026-02-27T19:58:49Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
ClinSkill QA formulates clinical skill understanding and continuous perception for clinical skill assessment as an ordering task: the MLLM is required to arrange shuffled key frames into a coherent sequence of clinical actions and to provide explanations for the resulting order. The dataset is constructed from video clips of medical student clinical procedures, collected from Zhongnan Hospital of Wuhan University and Cofun. For evaluation, we use Task Accuracy (exact ordering) and Pairwise Accuracy (the fraction of adjacent pairs correctly ordered) for the ordering results, and BertScore as well as an LLM-as-judge(G-Eval) for assessing the quality of the ordering explanations.<br />
Dataset access: After joining our Google Group (https://groups.google.com/g/clinskill-qa2026), participants can download the dataset via Google Drive: https://drive.google.com/file/d/1PdaBthI3OeDEbMlxUAxKqsKWw_t6hdJ2/view?usp=drive_link<br />
<br />
Additional information: https://whunextgen.github.io/ClinicalskillQA/<br />
<br />
<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13991BioNLP Workshop2026-02-26T19:12:52Z<p>Dina: /* MedGenVidQA */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset.<br />
<br />
The CodaBench registration and submission portal for the MedGenVidQA shared task is now open. <br />
<br />
Participants can access the test dataset and submit their system runs for evaluation through the portal.<br />
<br />
Task A: Multimodal Retrieval (MMR) https://www.codabench.org/competitions/13989/<br />
<br />
Task B: Multimodal Answer Generation (MAG) https://www.codabench.org/competitions/14014/<br />
<br />
Task C: Visual Answer Localization (VAL) https://www.codabench.org/competitions/14015/<br />
<br />
Submission Deadline: March 31, 2026<br />
<br />
More details can be found on the shared task webpage: https://medgenvidqa.github.io/<br />
<br />
==== ClinicalSkillQA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13990BioNLP Workshop2026-02-26T19:10:35Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====MedGenVidQA====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
<br />
==== ClinicalSkillQA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13989BioNLP Workshop2026-02-26T19:08:40Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== ClinicalSkillQA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13988BioNLP Workshop2026-02-26T19:08:06Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect====<br />
<br />
Detecting Psychological Defense Mechanisms in Conversations. This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13987BioNLP Workshop2026-02-26T19:07:18Z<p>Dina: /* SUBMISSION INSTRUCTIONS */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
'''Submission site for the workshop: https://softconf.com/acl2026/bionlp2026'''<br />
<br />
'''Submission site for the Shared Tasks: https://softconf.com/acl2026/bionlp2026-st'''<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect: Detecting Psychological Defense Mechanisms in Conversations====<br />
<br />
This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13985BioNLP Workshop2026-01-16T22:09:17Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<b>Tentative</b><br />
<br><br />
(All submission deadlines are 11:59 p.m. UTC-12:00 “anywhere on Earth”)<br />
<br />
* Paper submission deadline: April 17 (Friday), 2026<br />
* Notification of acceptance: May 4 (Monday), 2026<br />
* Camera-ready paper due: May 12 (Tuesday), 2026<br />
* Workshop: July 3 OR 4, 2026, Collocated with ACL 2026 in San Diego, CA<br />
<br><br />
Please watch for the updates!<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full papers and short papers. <br />
<br />
Full papers should not exceed eight (8) pages of text, plus unlimited references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting, innovative, and promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in and preference for mature results, strong performance, and thorough evaluation. Both types of research and combinations thereof are encouraged. <br />
<br />
Short papers may consist of up to four (4) pages of content, plus unlimited references. Appropriate short paper topics include preliminary results, application notes, descriptions of work in progress, etc.<br />
<br />
Electronic Submission<br />
Submissions must be electronic and in PDF format, using the Softconf START conference management system <br />
Submissions need to be anonymous. <br />
<br />
Submission site for the workshop: START system (link coming soon)<br />
<br />
Please follow the ACL formatting guidelines: https://github.com/acl-org/acl-style-files<br />
<br />
Dual submission policy: papers may NOT be submitted to the BioNLP workshop if they are or will be concurrently submitted to another meeting or publication. <br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect: Detecting Psychological Defense Mechanisms in Conversations====<br />
<br />
This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.<br />
<br />
===Workshop Organizers===<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK<br />
* Kirk Roberts, UTHealth, Houston, Texas<br />
* Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13984SIGBIOMED2026-01-15T19:53:00Z<p>Dina: /* Upcoming Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
[https://bionlp.nlm.nih.gov/cl4health2026/ CL4Health 2026]. Patient-oriented language processing at [https://www.elra.info/lrec2026/ LREC 2026], May 12 2026, Palma de Mallorca, Spain </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 3 OR 4, 2026, San Diego, CA, USA </div><br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13983SIGBIOMED2026-01-15T19:51:40Z<p>Dina: </p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
[https://bionlp.nlm.nih.gov/cl4health2026/ CL4Health 2025]. Patient-oriented language processing at [https://www.elra.info/lrec2026/ LREC 2026], May 12 2026, Palma de Mallorca, Spain </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 3 OR 4, 2026, San Diego, CA, USA </div><br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13982SIGBIOMED2026-01-15T19:43:18Z<p>Dina: /* Upcoming Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 3 OR 4, 2026, San Diego, CA, USA </div><br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13975BioNLP Workshop2026-01-02T16:32:05Z<p>Dina: /* MedExACT */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<!-- * <font color="#808080"> Paper submission deadline: March 20, 2025<br />
* Notification of acceptance: April 28, 2025<br />
* Camera-ready paper due: May 25, 2025 -- No extensions due to ACL publication deadline. <br />
* Pre-recorded video due (hard deadline): July 10, 2025. Please contact Underline if you need help </font> --><br />
* <b> Workshop: Collocated with ACL 2026 that will be held in San Diego, CA, from July 2 - 7, 2026. </b> More information will be announced soon.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. <br><br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect: Detecting Psychological Defense Mechanisms in Conversations====<br />
<br />
This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13974BioNLP Workshop2026-01-02T16:31:42Z<p>Dina: /* MedExACT */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<!-- * <font color="#808080"> Paper submission deadline: March 20, 2025<br />
* Notification of acceptance: April 28, 2025<br />
* Camera-ready paper due: May 25, 2025 -- No extensions due to ACL publication deadline. <br />
* Pre-recorded video due (hard deadline): July 10, 2025. Please contact Underline if you need help </font> --><br />
* <b> Workshop: Collocated with ACL 2026 that will be held in San Diego, CA, from July 2 - 7, 2026. </b> More information will be announced soon.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
Please join the google group to receive notifications and register your team https://groups.google.com/g/medexact-acl2026. \br<br />
If you have any question, feel free to send an email to medexact-acl2026+owner@googlegroups.com.<br />
<br />
====PsyDefDetect: Detecting Psychological Defense Mechanisms in Conversations====<br />
<br />
This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13973BioNLP Workshop2026-01-02T16:26:11Z<p>Dina: /* Detecting Psychological Defense Mechanisms in Conversations */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<!-- * <font color="#808080"> Paper submission deadline: March 20, 2025<br />
* Notification of acceptance: April 28, 2025<br />
* Camera-ready paper due: May 25, 2025 -- No extensions due to ACL publication deadline. <br />
* Pre-recorded video due (hard deadline): July 10, 2025. Please contact Underline if you need help </font> --><br />
* <b> Workshop: Collocated with ACL 2026 that will be held in San Diego, CA, from July 2 - 7, 2026. </b> More information will be announced soon.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
====PsyDefDetect: Detecting Psychological Defense Mechanisms in Conversations====<br />
<br />
This task focuses on classifying Seeker’s utterances in supportive conversations into specific Psychological Defense Levels based on the Defense Mechanism Rating Scales (DMRS) framework. The benchmark addresses the challenge of capturing subtle linguistic cues of deep-seated psychological mechanisms within highly informal and context-dependent emotional dialogues. This initiative supports research at the intersection of clinical psychology and NLP, aiming to operationalize complex psychological constructs for computational analysis. Participating systems will be ranked using Accuracy, Precision, Recall, and F1-score.<br />
<br />
Task Homepage: https://psydefdetect-shared-task.github.io/<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13962BioNLP Workshop2025-11-13T16:30:08Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
===IMPORTANT DATES ===<br />
<br />
<!-- * <font color="#808080"> Paper submission deadline: March 20, 2025<br />
* Notification of acceptance: April 28, 2025<br />
* Camera-ready paper due: May 25, 2025 -- No extensions due to ACL publication deadline. <br />
* Pre-recorded video due (hard deadline): July 10, 2025. Please contact Underline if you need help </font> --><br />
* <b> Workshop: Collocated with ACL 2026 that will be held in San Diego, CA, from July 2 - 7, 2026. </b> More information will be announced soon.<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
====Detecting Psychological Defense Mechanisms in Conversations====<br />
This task is the first benchmark to capture psychologically grounded constructs (defense mechanisms) in real conversational data. It focuses on fine-grained coping strategies in dialogue, supporting research at the intersection of clinical psychology, counseling, and NLP. Given the dialogue history and a target seeker utterance, participants will (Task A) predict whether any defense is present and (Task B) classify the specific type (e.g., Disavowal, Obsessional, Highly Adaptive). The organizers provide an expert-annotated dataset, train/dev/test splits, baselines, and a starter kit. Submissions will be evaluated on a held-out test set using F1 for Task A and Macro-F1 for Task B.<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13953BioNLP Workshop2025-09-24T18:37:46Z<p>Dina: /* WORKSHOP TOPIC AND CONTEXT */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora & coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation & data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
====Detecting Psychological Defense Mechanisms in Conversations====<br />
This task is the first benchmark to capture psychologically grounded constructs (defense mechanisms) in real conversational data. It focuses on fine-grained coping strategies in dialogue, supporting research at the intersection of clinical psychology, counseling, and NLP. Given the dialogue history and a target seeker utterance, participants will (Task A) predict whether any defense is present and (Task B) classify the specific type (e.g., Disavowal, Obsessional, Highly Adaptive). The organizers provide an expert-annotated dataset, train/dev/test splits, baselines, and a starter kit. Submissions will be evaluated on a held-out test set using F1 for Task A and Macro-F1 for Task B.<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13952BioNLP Workshop2025-09-24T18:32:31Z<p>Dina: /* SHARED TASKS */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora \& coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation \& data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received four strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
====Detecting Psychological Defense Mechanisms in Conversations====<br />
This task is the first benchmark to capture psychologically grounded constructs (defense mechanisms) in real conversational data. It focuses on fine-grained coping strategies in dialogue, supporting research at the intersection of clinical psychology, counseling, and NLP. Given the dialogue history and a target seeker utterance, participants will (Task A) predict whether any defense is present and (Task B) classify the specific type (e.g., Disavowal, Obsessional, Highly Adaptive). The organizers provide an expert-annotated dataset, train/dev/test splits, baselines, and a starter kit. Submissions will be evaluated on a held-out test set using F1 for Task A and Macro-F1 for Task B.<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13951BioNLP Workshop2025-09-24T18:31:26Z<p>Dina: /* SHARED TASKS */</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora \& coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation \& data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
BioNLP has a long-standing tradition of sponsoring Shared Tasks. This year, we invited SIGBioMed members to submit a description of a shared task to be included with the BioNLP proposal. We received three strong detailed descriptions of the tasks, which were reviewed by the workshop organizers. These well-defined and timely tasks are briefly described below. <br />
<br />
==== MedExACT====<br />
This task involves detection and labeling of medical decisions in ICU discharge summaries, with evaluation metrics emphasizing both accuracy and fairness across demographic and disease subgroups at the span and token levels, as well as through stratified analyses to measure robustness against biases in sex, race, English proficiency, and disease type. Baseline models such as RoBERTa indicated the complexity of the task, and participants will be supported with expedited access to MedDec through PhysioNet, a public leaderboard, and a starter kit in Python. The training and validation splits of MedDec are currently available on PhysioNet, while the test split has not been released and will remain withheld until the evaluation phase.<br />
<br />
====Detecting Psychological Defense Mechanisms in Conversations====<br />
This task is the first benchmark to capture psychologically grounded constructs (defense mechanisms) in real conversational data. It focuses on fine-grained coping strategies in dialogue, supporting research at the intersection of clinical psychology, counseling, and NLP. Given the dialogue history and a target seeker utterance, participants will (Task A) predict whether any defense is present and (Task B) classify the specific type (e.g., Disavowal, Obsessional, Highly Adaptive). The organizers provide an expert-annotated dataset, train/dev/test splits, baselines, and a starter kit. Submissions will be evaluated on a held-out test set using F1 for Task A and Macro-F1 for Task B.<br />
<br />
====BioGen====<br />
The task focuses on grounding answers with reference attribution to mitigate generation of false statements by LLMs when answering biomedical questions. BioGen 2026 introduces generation of multimodal answers from textual and visual sources with citations, leveraging PubMed and HealthVidQA as multimodal sources. The test set is based on the information requests submitted by self-identified non-clinicians to the MedlinePlus service provided by the National Library of Medicine. The evaluation will leverage BioACE, an automated metric that strongly correlates with human evaluation on the BioGen 2024 textual dataset. <br />
<br />
==== Clinical Skill QA====<br />
This task extends evaluation to a multimodal setting. Given an image of a medical student’s procedure, a question, and four answer options, the goal is for participants to train a model to generate the correct response. The dataset will be constructed from ~80 video clips of medical student clinical procedures, collected from a partner medical school. This task provides a unified framework for benchmarking, diagnosing, and advancing LLM capabilities for both clinical decision support and medical training. Evaluation will follow a multiple-choice QA setup with accuracy as the primary metric, with additional stratified analyses by skill type and modality.</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13950BioNLP Workshop2025-09-24T18:10:02Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]<br />
<br />
<br />
===WORKSHOP TOPIC AND CONTEXT===<br />
<br />
The interest in biomedical and clinical language continues to broaden due to unprecedented advances supported by success stories in improving health through supporting patients and clinicians. Access to biomedical information became easier, and more people generate and access health-related text. Only language technologies can enable and support adequate use of the biomedical and clinical text in most use cases. The advances in pre-trained language models and foundation models make all parties involved in healthcare turn to language technologies in the hope of getting tangible support in satisfying information needs, facilitating research and improving clinical documentation and healthcare. In addition to exposing BioNLP researchers to the mainstream ACL research, the workshop is a venue for informing the mainstream ACL researchers about the fast growing and important domain of biomedical / clinical language processing.<br />
<br />
BioNLP 2026 will focus on evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of<br />
reliability of the proposed solutions. BioNLP 2026 will continue focusing on transparency of the generative approaches and factuality of the generated<br />
text. Language processing that supports DEIA (Diversity, Equity, Inclusion and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be paramount. Research in languages other than English, particularly, under-represented languages, and health disparities are always of interest to BioNLP. Other areas of interest include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora \& coreference resolution; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation \& data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language processing applications;</li> <br />
<li> Reproducibility of the published findings. </li><br />
</ul><br />
<br />
===SHARED TASKS===</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13949SIGBIOMED2025-09-24T17:58:37Z<p>Dina: </p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2026 Workshop and Shared Tasks]] at [https://2026.aclweb.org ACL], July 2-7 , 2026, San Diego, CA, USA </div><br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2025|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13948BioNLP Workshop2025-09-24T17:55:29Z<p>Dina: Removed redirect to BioNLP 2025</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2025]]</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_Workshop&diff=13947BioNLP Workshop2025-09-24T17:53:33Z<p>Dina: Dina moved page BioNLP Workshop to BioNLP 2025: preserve the 2025 workshop</p>
<hr />
<div>#REDIRECT [[BioNLP 2025]]</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=BioNLP_2025&diff=13946BioNLP 20252025-09-24T17:53:33Z<p>Dina: Dina moved page BioNLP Workshop to BioNLP 2025: preserve the 2025 workshop</p>
<hr />
<div>[[SIGBIOMED]] | [[BioNLP 2024]] | [[BioNLP 2023]]<br />
<br />
<br />
<font size="4"><b>BIONLP 2025 and Shared Tasks @ ACL 2025</b></font><br />
<br />
The 24th BioNLP workshop associated with the ACL SIGBIOMED special interest group is co-located with [https://2025.aclweb.org/ ACL 2025]<br />
<br />
<br />
===IMPORTANT DATES ===<br />
<br />
* <font color="#808080"> Paper submission deadline: March 20, 2025<br />
* Notification of acceptance: April 28, 2025<br />
* Camera-ready paper due: May 25, 2025 -- No extensions due to ACL publication deadline. <br />
* Pre-recorded video due (hard deadline): July 10, 2025. Please contact Underline if you need help </font><br />
* <b> Workshop: August 1st 2025 </b><br />
<br />
=== Keynote ===<br />
Speaker: Wojciech Kusa<br />
<br />
Incorporating Changes in Review Outcomes in the Evaluation of Systematic Review Automation<br />
<br />
Current evaluations of automation methods in systematic literature reviews often treat all included studies as equally important, ignoring their varying influence on review outcomes. This can misrepresent the effectiveness of search strategies, as not all relevant studies contribute equally to the conclusions of the review. To address this limitation, we propose a new evaluation framework that incorporates the differential impact of individual studies on review outcomes. Using data from the CLEF 2019 TAR task, we applied this framework to assess 74 automation models, leveraging meta-analysis effect estimates to weigh the influence of each study. Compared to conventional binary relevance metrics, our approach provided a more nuanced assessment, emphasizing the importance of retrieving high-impact studies. Results showed significant differences in model rankings, underscoring the value of outcome-based evaluation. This framework offers researchers a more precise method for evaluating systematic review automation tools, ultimately supporting higher-quality evidence synthesis and better-informed clinical decisions.<br />
<br />
Wojciech is a Senior Researcher at the NASK National Research Institute in Poland, where he leads the Linguistic Engineering and Text Analysis Department. He holds a PhD in NLP from TU Wien, with a focus on applying and evaluating neural methods for domain-specific data. His research interests include the safety and evaluation of large language models, clinical and biomedical NLP, and AI-driven scientific discovery. Wojciech was a Marie Skłodowska-Curie Fellow in the EU Horizon 2020 project DoSSIER, specialising in biomedical information retrieval and NLP. He has industry experience from roles at Samsung and Allegro, and has completed research internships at Sony, UNINOVA, and the Polish Academy of Sciences.<br />
<br />
<br />
===Program Committee===<br />
* Daniel Andrade, Hiroshima University, Japan <br />
* Emilia Apostolova, Anthem, Inc., USA<br />
* Eiji Aramaki, University of Tokyo, Japan <br />
* Tanmay Basu, Indian Institute of Science Education and Research Bhopal, India<br />
* Leandra Budau, Toronto Metropolitan University, Canada<br />
* Leonardo Campillos-Llanos, Centro Superior de Investigaciones Científicas - CSIC, Spain<br />
* Liuliu Chen, University of Melbourne, Australia<br />
* Yingjian Chen, Henan University, China<br />
* Brian Connolly, Cincinnati Children's Hospital Hospital Medical Center, Ohio, USA<br />
* Mike Conway, University of Melbourne, Australia<br />
* An Dao, University of Tokyo, Japan<br />
* Berry de Bruijn, National Research Council, Canada<br />
* Jean-Benoit Delbrouck, Stanford University, California, USA<br />
* Dina Demner-Fushman, US National Library of Medicine<br />
* Simona Doneva, University of Zurich, Switzerland<br />
* Pietro Ferrazzi, University of Padua, Italy<br />
* Kathleen C. Fraser, National Research Council Canada<br />
* Natalia Grabar, CNRS, U Lille, France<br />
* Cyril Grouin, Université Paris-Saclay, CNRS<br />
* Tudor Groza, EMBL-EBI<br />
* Yingjun Guan, University of Illinois Urbana-Champaign, USA<br />
* Deepak Gupta, US National Library of Medicine <br />
* Thierry Hamon, LIMSI-CNRS, France<br />
* Ben Holgate, King's College London, UK<br />
* Antonio Jimeno Yepes, IBM, Melbourne Area, Australia<br />
* Hidetaka Kamigaito, Nara Institute of Science and Technology, Japan<br />
* Vani Kanjirangat, Dalle Molle Institute for Artificial Intelligence (IDSIA), Switzerland <br />
* Sarvnaz Karimi, CSIRO, Australia<br />
* Nazmul Kazi, University of North Florida, USA<br />
* Siun Kim, Seoul National University, Korea<br />
* Gaurav Kumar, University of California, San Diego, USA<br />
* Andre Lamurias, NOVA School of Science and Technology, Lisbon, Portugal<br />
* Majid Latifi, Department of Computer Science, University of York, York, UK<br />
* Alberto Lavelli, FBK-ICT, Italy<br />
* Robert Leaman, US National Library of Medicine <br />
* Lung-Hao Lee, National Central University, Taiwan<br />
* Ulf Leser, Humboldt-Universität zu Berlin, Germany <br />
* Yuan Liang, Queen Mary University of London, UK<br />
* Siting Liang, German Research Center for Artificial Intelligence, Germany<br />
* Livia Lilli, Fondazione Policlinico Universitario Agostino Gemelli, Italy<br />
* Abdine Maiga, University College London, UK<br />
* Makoto Miwa, Toyota Technological Institute, Japan<br />
* Claire Nedellec, National Research Institute for Agriculture, Food and Environment (INRAE), Paris-Saclay University, France<br />
* Guenter Neumann, DFKI, Germany<br />
* Aurélie Névéol, LISN - CNRS, France<br />
* Mariana Neves, Hasso-Plattner-Institute at the University of Potsdam, Germany<br />
* Andrei Niculae, Carol Davila University of Medicine and Pharmacy, Romania<br />
* Brian Ondov, Yale University, USA<br />
* Noon Pokaratsiri Goldstein, Deutsches Forschungszentrum für Künstliche Intelligenz (DFKI)<br />
* François Remy, Ghent University, Belgium<br />
* Francisco J. Ribadas-Pena, University of Vigo, Spain<br />
* Fabio Rinaldi, Dalle Molle Institute for Artificial Intelligence Research (IDSIA), Switzerland <br />
* Roland Roller, DFKI, Germany<br />
* Mourad Sarrouti, CLARA Analytics, USA<br />
* Efstathia Soufleri, Archimedes - Athena Research Center, Greece<br />
* Peng Su, University of Delaware, USA<br />
* Madhumita Sushil, University of California, San Francisco, USA<br />
* Mario Sänger, Humboldt Universität zu Berlin, Germany<br />
* Karin Verspoor, RMIT University, Australia<br />
* Davy Weissenbacher, Cedars-Sinai, Los Angeles, California, USA<br />
* Nathan M. White, James Cook University, Australia<br />
* Dongfang Xu, Cedars-Sinai, USA<br />
* Shweta Yadav, University of Illinois Chicago, USA<br />
* Ken Yano, National Institute of Advanced Industrial Science and Technology, Japan<br />
* Hyunwoo Yoo, Drexel University, USA<br />
* Kai Zhang, Worcester Polytechnic Institute, MA, USA<br />
* Xinyue Zhang, King's College London, UK<br />
* Xiao Yu Cindy Zhang, University of British Columbia, Canada<br />
* Jingqing Zhang, Imperial College London, UK<br />
* Angelo Ziletti, Bayer, Germany<br />
* Ayah Zirikly, Johns Hopkins, USA<br />
* Pierre Zweigenbaum, LIMSI - CNRS, France<br />
<br />
===Secondary Reviewers=== <br />
* Joseph Akinyemi, University of York, UK<br />
* Robert Bossy, National Research Institute for Agriculture, Food and Environment (INRAE), France<br />
* Marco Naguib, Interdisciplinary Laboratory on Numerical Sciences (LISN), France<br />
<br />
===Sponsor===<br />
We are pleased to announce that the Chen Institute is co-organizing the BioNLP 2025 Workshop. Founded in 2016 by Tianqiao Chen and Chrissy Luo, the Chen Institute is driven by a bold vision to improve the human experience by understanding how our brains perceive, learn, and interact with the world. Their global platform includes the Tianqiao and Chrissy Chen Institute for Neuroscience at Caltech, the Tianqiao Chen Institute for Translational Research in Shanghai, the Chen Frontier Lab for Applied Neurotechnology, and the Chen Frontier Lab for AI and Mental Health. The Chen Scholars program supports early- to mid-career scientists, and the recently launched Chen Institute and Science Prize for AI Accelerated Research highlights their deep commitment to innovation.<br />
<br />
At this year’s BioNLP Workshop, the Chen Institute is interested in exploring how artificial intelligence can accelerate the pace of scientific discovery. We believe there are vast, untapped opportunities to make groundbreaking advances by leveraging the power of AI. The hope is that this meeting will serve as the beginning of an ongoing dialogue—focused on new developments, transformative successes, and emerging thinking at the intersection of AI and science. Through this collaboration, the Chen Institute aims to identify and support promising approaches with the potential to meaningfully change the world.<br />
<br />
<br />
===Workshop Program===<br />
<br />
Friday, August 1, 2025<br />
<br />
*08:40 - 08:50 <b>Opening remarks</b><br />
<br />
*08:50 - 10:30 <b>Session 1: Foundational tasks</b><br />
<br />
*08:50 - 09:10 Accelerating Cross-Encoders in Biomedical Entity Linking, Javier Sanz-Cruzado and Jake Lever, University of Glasgow <br />
*09:10 - 09:30 Beyond Citations: Integrating Finding-Based Relations for Improved Biomedical Article Representations, Yuan Liang, Massimo Poesio, Roonak Rezvani, Queen Mary University of London, University of Utrecht, Recursion <br />
*09:30 - 09:50 MedSummRAG: Domain-Specific Retrieval for Medical Summarization, Guanting Luo and Yuki Arase, The University of Osaka, Institute of Science Tokyo<br />
*09:50 - 10:10 Advancing Biomedical Claim Verification by Using Large Language Models with Better Structured Prompting Strategies, Siting Liang and Daniel Sonntag, German Research Center for Artificial Intelligence<br />
*10:10 - 10:30 Questioning Our Questions: How Well Do Medical QA Benchmarks Evaluate Clinical Capabilities of Language Models? Siun Kim and Hyung-Jin Yoon, Seoul Natoinal University Hospital, Biomedical Engineering, Seoul National University College of Medicine<br />
<br />
*10:30 - 11:00 <b>Coffee Break</b><br />
<br />
*11:00 - 12:30 <b>Session 2: Clinical NLP</b><br />
<br />
*11:00 - 11:20 A Retrieval-Based Approach to Medical Procedure Matching in Romanian, Andrei Niculae, Adrian Cosma, Emilian Radoi, National University of Science and Technology Politehnica Bucharest <br />
*11:20 - 11:40 Error Detection in Medical Note through Multi Agent Debate, Abdine L Maiga, Anoop Shah, Emine Yilmaz, University College London, Amazon <br />
*11:40 - 12:00 Converting Annotated Clinical Cases into Structured Case Report Forms, Pietro Ferrazzi, Alberto Lavelli, Bernardo Magnini, University of Padova, FBK<br />
<br />
*12:00 - 12:30 <b>Invited Talk</b> -- Wojciech Kusa: Incorporating Changes in Review Outcomes in the Evaluation of Systematic Review Automation<br />
<br />
*12:30 - 14:00 <b>Lunch</b><br />
<br />
*14:00 - 15:30 <b>Session 3: Shared Tasks</b><br />
<br />
*14:00 - 14:15 Overview of the BioLaySumm 2025 Shared Task on Lay Summarization of Biomedical Research Articles and Radiology Reports, Chenghao Xiao, Kun Zhao, Xiao Wang, Siwei Wu, Sixing Yan, Tomas Goldsack, Sophia Ananiadou, Noura Al Moubayed, Liang Zhan, William K. Cheung, Chenghua Lin, Durham University, University of Pittsburgh, University of Manchester, Hong Kong Baptist University, University of Sheffield <br />
*14:15 - 14:20 Poster boaster: AEHRC at BioLaySumm 2025: Leveraging T5 for Lay Summarisation of Radiology Reports. Wenjun Zhang, Shekhar S. Chandra, Bevan Koopman, Jason Dowling and Aaron Nicolson<br />
*14:20 - 14:25 Poster boaster: Team SXZ at BioLaySumm2025: Combining Section‐Wise Summarization, K‐Shot LLM Prompting, BioBART, and RL Fine‐Tuning for Biomedical Lay Summaries. Pengcheng Xu, Sicheng Shen, Jieli Zhou and Hongyi Xin<br />
* 14:25 - 14:40 SMAFIRA Shared Task at the BioNLP'2025 Workshop: Assessing the Similarity of the Research Goal, Mariana Neves, Iva Sovadinova, Susanne Fieberg, Celine Heinl, diana Rubel, Gilbert Schönfelder, Bettina Bert, German Federal Institute for Risk Assessment, Masaryk University<br />
*14:40 - 14:55 Overview of the ClinIQLink 2025 Shared Task on Medical Question-Answering, Brandon C Colelough, Davis Bartels, Dina Demner-Fushman, National Library of Medicine<br />
*14:55 - 15:00 Poster boaster: VeReaFine: Iterative Verification Reasoning Refinement RAG for Hallucination-Resistant on Open-Ended Clinical QA. Pakawat Phasook, Rapepong Pitijaroonpong, Jiramet Kinchagawat, Amrest Chinkamol, Tossaporn Saengja, Kiartnarin Udomlapsakul, Jitkapat Sawatphol and Piyalitt Ittichaiwong<br />
*15:00 - 15:15 Overview of the ArchEHR-QA 2025 Shared Task on Grounded Question Answering from Electronic Health Records, Sarvesh Soni, SOUMYA GAYEN, Dina Demner-Fushman, National Library of Medicine <br />
*15:15 - 15:20 Poster boaster: ArgHiTZ at ArchEHR-QA 2025: A Two-Step Divide and Conquer Approach to Patient Question Answering for Top Factuality. Adrian Cuadron Cortes, Aimar Sagasti, Maitane Urruela, Iker De la Iglesia, Ane García Domingo-Aldama, Aitziber Atutxa Salazar, Josu Goikoetxea and Ander Barrena<br />
*15:20 - 15:25 Poster boaster: Neural at ArchEHR-QA 2025: Agentic Prompt Optimization for Evidence-Grounded Clinical Question Answering. Sai Prasanna Teja Reddy Bogireddy, Abrar Majeedi, Viswanath Reddy Gajjala, Zhuoyan Xu, Siddhant Rai and Vaishnav Potlapalli<br />
<br />
*15:30 - 16:00 <b>Coffee Break</b><br />
<br />
*16:00 - 18:00 <b>Poster Sessions</b> (online, onsite, workshop and shared tasks. Note: Shared Task papers listed in Volume 2)<br />
<br />
* Improving Barrett's Oesophagus Surveillance Scheduling with Large Language Models: A Structured Extraction Approach, Xinyue Zhang, Agathe Zecevic, Sebastian Zeki, Angus Roberts, King's College London, Guy's and St Thomas' NHS Foundation Trust<br />
* Effective Multi-Task Learning for Biomedical Named Entity Recognition, João Ruano, Gonçalo M Correia, Leonor Maria Machado Barreiros, Afonso Mendes, Priberam<br />
* PetEVAL: A veterinary free text electronic health records benchmark, Sean Farrell, Alan Radford, Noura Al Moubayed, Peter-John Mäntylä Noble, Durham University, University of Liverpool<br />
* Can Large Language Models Classify and Generate Antimicrobial Resistance Genes? Hyunwoo Yoo, Haebin Shin, Gail Rosen, Drexel University, KAIST AI<br />
* Overcoming Data Scarcity in Named Entity Recognition: Synthetic Data Generation with Large Language Models. An Dao, Hiroki Teranishi, Yuji Matsumoto, Florian Boudin, Akiko Aizawa, The University of Tokyo, RIKEN Center for Advanced Intelligence Project, Nantes University, National Institute of Informatics<br />
* Fine-tuning LLMs to Extract Epilepsy Seizure Frequency Data from Health Records, Ben Holgate, Joe Davies, Shichao Fang, Joel S. Winston, James T. Teo, Mark P. Richardson, King's College London <br />
* Transformer-Based Medical Statement Classification in Doctor-Patient Dialogues, Farnod Bahrololloomi, Johannes Luderschmidt, Biying Fu, RheinMain University of Applied Sciences <br />
* PreClinIE: An Annotated Corpus for Information Extraction in Preclinical Studies, Simona Emilova Doneva, Hanna Hubarava, Pia Andrea Härvelid, Wolfgang Emanuel Zürrer, Julia V Bugajska, Bernard Friedrich Hild, David Brüschweiler, Gerold Schneider, Tilia Ellendorff, Benjamin Victor Ineichen, University of Zurich <br />
* QoLAS: A Reddit Corpus of Health-Related Quality of Life Aspects of Mental Disorders, Lynn Greschner, Amelie Wührl, Roman Klinger, University of Bamberg, University of Stuttgart <br />
* Gender-Neutral Large Language Models for Medical Applications: Reducing Bias in PubMed Abstracts, Elizabeth Schaefer and Kirk Roberts, Yale University, University of Texas Health Science Center at Houston <br />
* LLMs as Medical Safety Judges: Evaluating Alignment with Human Annotation in Patient-Facing QA, Yella Leonie Diekmann, Chase M Fensore, Rodrigo M Carrillo-Larco, Eduard R Castejon Rosales, Sakshi Shiromani, Rima Pai, Megha Shah, Joyce C Ho, Emory University <br />
* AdaBioBERT: Adaptive Token Sequence Learning for Biomedical Named Entity Recognition, Sumit Kumar and Tanmay Basu, Indian Institute of Science Education and Research Bhopal<br />
* Enhancing Stress Detection on Social Media Through Multi-Modal Fusion of Text and Synthesized Visuals, Efstathia Soufleri and Sophia Ananiadou, Athena RC, University of Manchester<br />
* MuCoS: Efficient Drug–Target Discovery via Multi-Context-Aware Sampling in Knowledge Graphs, Haji Gul, Abdul Ghani Naim, Ajaz Ahmad Bhat, UBD<br />
* Enhancing Antimicrobial Drug Resistance Classification by Integrating Sequence-Based and Text-Based Representations, Hyunwoo Yoo, Bahrad Sokhansanj, James R Brown, Drexel University <br />
* Effect of Multilingual and Domain-adapted Continual Pre-training on Few-shot Promptability, Ken Yano and Makoto Miwa, The National Institute of Advanced Industrial Science and Technology, Toyota Technological Institute<br />
* Understanding the Impact of Confidence in Retrieval Augmented Generation: A Case Study in the Medical Domain, Shintaro Ozaki, Yuta Kato, Siyuan Feng, Masayo Tomita, Kazuki Hayashi, Wataru Hashimoto, Ryoma Obara, Masafumi Oyamada, Katsuhiko Hayashi, Hidetaka Kamigaito, Taro Watanabe, Nara Institute of Science and Technology, The University of Tokyo, NEC<br />
* Prompting Large Language Models for Italian Clinical Reports: A Benchmark Study, Livia Lilli, Carlotta Masciocchi, Antonio Marchetti, Giovanni Arcuri, Stefano Patarnello, Fondazione Policlinico Universitario Agostino Gemelli IRCCS, Catholic University of the Sacred Heart, Rome, Italy <br />
* CaseReportCollective: A Large-Scale LLM-Extracted Dataset for Structured Medical Case Reports, Xiao Yu Cindy Zhang, Melissa Fong, Wyeth Wasserman, Jian Zhu, University of British Columbia <br />
* RadQA-DPO: A Radiology Question Answering System with Encoder-Decoder Models Enhanced by Direct Preference Optimization, Md Sultan Al Nahian and Ramakanth Kavuluru, University of Kentucky <br />
* Benchmarking zero-shot biomedical relation triplet extraction across language model architectures, Frederik Steensgaard Gade, Ole Lund, Marie Lisandra Zepeda Mendoza, Technical University of Denmark, Novo Nordisk Research Centre Oxford <br />
* Virtual CRISPR: Can LLMs Predict CRISPR Screen Results? Steven Song, Abdalla Abdrabou, Asmita Dabholkar, Kastan Day, Pavan Dharmoju, Jason Perera, Volodymyr Kindratenko, Aly A Khan, University of Chicago, Chan Zuckerberg Biohub Chicago, University of Illinois Urbana-Champaign, Northwestern University<br />
<br />
<br />
<b><font size="5"> BioNLP-ST 2025 Posters</font></b><br />
ArgHiTZ at ArchEHR-QA 2025: A Two-Step Divide and Conquer Approach to Patient Question Answering for Top Factuality. Adrian Cuadron Cortes, Aimar Sagasti, Maitane Urruela, Iker De la Iglesia, Ane García Domingo-Aldama, Aitziber Atutxa Salazar, Josu Goikoetxea, Ander Barrena <br />
<br />
UNIBUC-SD at ArchEHR-QA 2025: Prompting Our Way to Clinical QA with Multi-Model Ensembling. Dragos Dumitru Ghinea and Ștefania Rîncu <br />
<br />
Loyola at ArchEHR-QA 2025: Exploring Unsupervised Attribution of Generated Text: Attention and Clustering-Based Methods. Rohan Sethi, Timothy Miller, Majid Afshar, Dmitriy Dligach <br />
<br />
CUNI-a at ArchEHR-QA 2025: Do we need Giant LLMs for Clinical QA? Vojtech Lanz and Pavel Pecina <br />
<br />
WisPerMed at ArchEHR-QA 2025: A Modular, Relevance-First Approach for Grounded Question Answering on Eletronic Health Records. Jan-Henning Büns, Hendrik Damm, Tabea Margareta Grace Pakull, Felix Nensa, Elisabeth Livingstone<br />
<br />
heiDS at ArchEHR-QA 2025: From Fixed-k to Query-dependent-k for Retrieval Augmented Generation. Ashish Chouhan and Michael Gertz<br />
<br />
UniBuc-SB at ArchEHR-QA 2025: A Resource-Constrained Pipeline for Relevance Classification and Grounded Answer Synthesis. Sebastian Balmus, Dura Alexandru Bogdan, Ana Sabina Uban<br />
<br />
KR Labs at ArchEHR-QA 2025: A Verbatim Approach for Evidence-Based Question Answering. Adam Kovacs, Paul Schmitt, Gabor Recski<br />
<br />
LAILab at ArchEHR-QA 2025: Test-time scaling for evidence selection in grounded question answering from electronic health records. Tuan Dung Le, Thanh Duong, Shohreh Haddadan, Behzad Jazayeri, Brandon Manley, Thanh Thieu<br />
<br />
UTSA-NLP at ArchEHR-QA 2025: Improving EHR Question Answering via Self-Consistency Prompting. Sara Shields-Menard, Zach Reimers, Joshua Gardner, David Perry, Anthony Rios<br />
<br />
UTSamuel at ArchEHR-QA 2025: A Clinical Question Answering System for Responding to Patient Portal Messages Using Generative AI. Samuel M Reason, Liwei Wang, Hongfang Liu, Ming Huang<br />
<br />
LAMAR at ArchEHR-QA 2025: Clinically Aligned LLM-Generated Few-Shot Learning for EHR-Grounded Patient Question Answering. Seksan Yoadsanit, Nopporn Lekuthai, Watcharitpol Sermsrisuwan, Titipat Achakulvisut<br />
<br />
Neural at ArchEHR-QA 2025: Agentic Prompt Optimization for Evidence-Grounded Clinical Question Answering. Sai Prasanna Teja Reddy Bogireddy, Abrar Majeedi, Viswanath Reddy Gajjala, Zhuoyan Xu, Siddhant Rai, Vaishnav Potlapalli<br />
<br />
UIC at ArchEHR-QA 2025: Tri-Step Pipeline for Reliable Grounded Medical Question Answering. Mohammad Arvan, Anuj Gautam, Mohan Zalake, Karl M. Kochendorfer<br />
<br />
DMIS Lab at ArchEHR-QA 2025: Evidence-Grounded Answer Generation for EHR-based QA via a Multi-Agent Framework. Hyeon Hwang, Hyeongsoon Hwang, JongMyung Jung, Jaehoon Yun, Minju Song, Yein Park, Dain Kim, Taewhoo Lee, Jiwoong Sohn, Chanwoong Yoon, Sihyeon Park, Jiwoo Lee, Heechul Yang, Jaewoo Kang<br />
<br />
CogStack-KCL-UCL at ArchEHR-QA 2025: Investigating Hybrid LLM Approaches for Grounded Clinical Question Answering. Shubham Agarwal, Thomas Searle, Kawsar Noor, Richard Dobson<br />
<br />
SzegedAI at ArchEHR-QA 2025: Combining LLMs with traditional methods for grounded question answering. Soma Bálint Nagy, Bálint Nyerges, Zsombor Mátyás Kispéter, Gábor Tóth, András Tamás Szlúka, Gábor Kőrösi, Zsolt Szántó, Richárd Farkas<br />
<br />
LIMICS at ArchEHR-QA 2025: Prompting LLMs Beats Fine-Tuned Embeddings. Adam REMAKI, Armand Violle, Vikram Natraj, Étienne Guével, Akram Redjdal<br />
<br />
razreshili at ArchEHR-QA 2025: Contrastive Fine-Tuning for Retrieval-Augmented Biomedical QA. Arina Zemchyk<br />
<br />
DKITNLP at ArchEHR-QA 2025: A Retrieval Augmented LLM Pipeline for Evidence-Based Patient Question Answering. Provia Kadusabe, Abhishek Kaushik, Fiona Lawless<br />
<br />
AEHRC at BioLaySumm 2025: Leveraging T5 for Lay Summarisation of Radiology Reports. Wenjun Zhang, Shekhar S Chandra, Bevan Koopman, Jason Dowling, Aaron Nicolson<br />
<br />
MetninOzU at BioLaySumm2025: Text Summarization with Reverse Data Augmentation and Injecting Salient Sentences. Egecan Evgin, Ilknur Karadeniz, Olcay Taner Yıldız<br />
<br />
Shared Task at Biolaysumm2025 : Extract then summarize approach Augmented with UMLS based Definition Retrieval for Lay Summary generation.. Aaradhya Gupta and Parameswari Krishnamurthy<br />
<br />
RainCityNLP at BioLaySumm2025: Extract then Summarize at Home. Jen Wilson, Michael Pollack, Rachel Edwards, Avery Bellamy, Helen Salgi<br />
<br />
TLPIQ at BioLaySumm: Hide and Seq, a FLAN-T5 Model for Biomedical Summarization. Melody Bechler, Carly Crowther, Emily Luedke, Natasha Schimka, Ibrahim Sharaf<br />
<br />
LaySummX at BioLaySumm: Retrieval-Augmented Fine-Tuning for Biomedical Lay Summarization Using Abstracts and Retrieved Full-Text Context. Fan Lin and Dezhi Yu<br />
<br />
5cNLP at BioLaySumm2025: Prompts, Retrieval, and Multimodal Fusion. Juan Antonio Lossio-Ventura, Callum Chan, Arshitha Basavaraj, Hugo Alatrista-Salas, Francisco Pereira, Diana Inkpen<br />
<br />
MIRAGES at BioLaySumm2025: The Impact of Search Terms and Data Curation for Biomedical Lay Summarization. Benjamin Pong, Ju-hui Chen, Jonathan Jiang, Abimael Hernandez Jimenez, Melody Vahadi<br />
<br />
SUWMIT at BioLaySumm2025: Instruction-based Summarization with Contrastive Decoding. Priyam Basu, Jose Cols, Daniel Jarvis, Yongsin Park, Daniel Rodabaugh<br />
<br />
BDA-UC3M @ BioLaySumm: Efficient Lay Summarization with Small-Scale SoTA LLMs. Ilyass Ramzi and Isabel Segura Bedmar<br />
<br />
KHU_LDI at BioLaySumm2025: Fine-tuning and Refinement for Lay Radiology Report Generation. Nur Alya Dania binti Moriazi and Mujeen Sung<br />
<br />
CUTN_Bio at BioLaySumm: Multi-Task Prompt Tuning with External Knowledge and Readability adaptation for Layman Summarization. Bhuvaneswari Sivagnanam, Rivo Krishnu C H, Princi Chauhan, Saranya Rajiakodi<br />
<br />
Team SXZ at BioLaySumm2025: Team XSZ at BioLaySumm2025: Section-Wise Summarization, Retrieval-Augmented LLM, and Reinforcement Learning Fine-Tuning for Lay Summaries. Pengcheng Xu, Sicheng Shen, Jieli Zhou, Hongyi Xin<br />
<br />
VeReaFine: Iterative Verification Reasoning Refinement RAG for Hallucination-Resistant on Open-Ended Clinical QA. Pakawat Phasook, Rapepong Pitijaroonpong, Jiramet Kinchagawat, Amrest Chinkamol, Tossaporn Saengja, Kiartnarin Udomlapsakul, Jitkapat Sawatphol, Piyalitt Ittichaiwong<br />
<br />
===SUBMISSION INSTRUCTIONS===<br />
<br />
Two types of submissions are invited: full (long) papers (8 pages) and short papers (4 pages).<br />
<br />
<font size="4"> Submission site for the workshop https://softconf.com/acl2025/BioNLP2025 </font> <br />
<font size="4"> Submission site for Shared Tasks https://softconf.com/acl2025/BioNLP2025-ST </font> <br />
<br />
Please follow these formatting guidelines: https://github.com/acl-org/acl-style-files <br />
Please note that the review process is double-blind. <br />
<br />
Final versions of accepted papers will be given one additional page of content (up to 9 pages for long papers, up to 5 pages for short papers) to address reviewers’ comments.<br />
<br />
==== Submissions from ACL rolling review ====<br />
We will consider ACL rolling review submissions with all reviews and scores. <br />
If you are interested in submitting your work for consideration, please contact ddemner at gmail.<br />
<br />
===WORKSHOP OVERVIEW AND SCOPE===<br />
<br />
The BioNLP workshop, associated with the ACL SIGBIOMED special interest group, is an established primary venue for presenting research in language processing and language understanding for the biological and medical domains. The workshop has been running every year since 2002 and continues getting stronger. Many other emerging biomedical and clinical language processing workshops can afford to be more specialized because BioNLP truly encompasses the breadth of the domain and brings together researchers in biomedical and clinical NLP from all over the world.<br />
<br />
BioNLP 2025 will be particularly interested in evaluation frameworks and metrics that reflect the needs of health-related use cases and provide a good estimate of reliability of the proposed solutions. BioNLP 2025 continues to focus on transparency of tgenerative approaches and factuality of the generated text. Language processing that supports DEIA (Diversity, Equity, Inclusion<br />
and Accessibility) continues to be of utmost importance. The work on detection and mitigation of bias and misinformation continues to be of interest. Research in languages other than English, particularly, under-represented languages, and health disparities<br />
are always of interest to BioNLP. Other active areas of research include, but are not limited to:<br />
<ul><br />
<li> Extraction of complex relations and events; </li> <br />
<li> Discourse analysis; Anaphora \& coreference resolution; </li> <br />
<li> Text mining \& Literature based discovery; </li> <br />
<li> Question Answering; Summarization; Text simplification; </li> <br />
<li> Resources and strategies for system testing and evaluation;</li> <br />
<li> Synthetic data generation \& data augmentation; </li> <br />
<li> Translating NLP research into practice: tangible explainable results of biomedical language<br />
processing applications.</li> <br />
</ul><br />
<br />
===SHARED TASKS===<br />
<br />
====SMAFIRA====<br />
The SMAFIRA project supports finding alternative methods to animal experiments. The organizers have released SMAFIRA Web tool that allows researchers to perform searches for methods alternative to animal experiments. The input to the tool is a PubMed identifier (PMID) of a publication that represents the animal experiment for which one wants to find an alternative method. The tool retrieves up to 200 similar articles available in PubMed, and presents these as a list of results. The task is to validate and annotate the top 10 similar articles, either automatically, with any system of the participants choice, or manually using the SMAFIRA tool. See details at https://smafira-bf3r.github.io/smafira-st/<br />
<br />
====ClinIQLink 2025 - LLM Lie Detector Test====<br />
The LLM Lie Detector Test aims to evaluate the effectiveness of generative models in producing factually accurate information, with a benchmark dataset specifically curated to align with the knowledge level of a General Practitioner (GP) Medical Doctor. Participants will submit model ouptputs to be assessed using a structured set of atomic question-answer pairs (factoid, true/false and list questions), which focus on retrieving precise, factually correct information. The test will evaluate internal model knowledge retrieval. See details at https://brandonio-c.github.io/ClinIQLink-2025/<br />
<br />
====ArchEHR-QA 2025: Grounded Electronic Health Record Question Answering====<br />
<br />
The participants will automatically generate answers to patients’ health-related questions that are grounded in the evidence from patients’ clinical notes. The dataset will consist of hand-curated realistic patient questions (submitted through a patient portal) and their corresponding clinician-rewritten versions (crafted to assist in formulating their responses). The task is to construct coherent answers or responses to input questions that must use and be grounded in the provided clinical note excerpts. See details at https://archehr-qa.github.io/<br />
<br />
====BioLaySumm 2025====<br />
This is the 3nd iteration of BioLaySumm, following the success of the 2nd edition of the task at BioNLP 2024 which attracted 200 plus submissions across 53 different teams and the 1st edition of the task at BioNLP 2023 which attracted 56 submissions across 20 different teams. This edition builds on last year’s task by introducing a new task: radiology report generation with layman’s terms, extending the shared task to a new domain and multi-modality. See detail at https://biolaysumm.org/</div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13930SIGBIOMED2025-08-28T19:53:51Z<p>Dina: </p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13929SIGBIOMED2025-08-28T19:53:05Z<p>Dina: /* Past Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<br />
<br />
<br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May 2025,Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13928SIGBIOMED2025-08-28T19:51:59Z<p>Dina: </p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<br />
<br />
<br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May Albuquerque, New Mexico </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:5px"> <br />
<tr><br />
<td> [[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025 in-person presentations]] </td><br />
<td> [[File: CL4Health2024.jpg|200px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13927SIGBIOMED2025-08-28T19:47:27Z<p>Dina: /* Past Events */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<br />
<br />
<br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<br />
[[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025]] <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May Albuquerque, New Mexico </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<br />
<table border="0" style="width:80%;padding:10px"> <br />
<tr><br />
<td> </td><br />
<td> [[File: CL4Health2024.jpg|150px|thumb|left|CL4Health 2024 in-person presentations]] </td><br />
<td> [[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] </td><br />
</tr><br />
<br />
</table><br />
<br />
<!--<br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SigBioMed_officers&diff=13926SigBioMed officers2025-08-27T21:12:44Z<p>Dina: /* Membership */</p>
<hr />
<div>[[SIGBIOMED]] <br />
<br />
<ul><br />
<li>Chair: [https://www.nlm.nih.gov/research/researchstaff/DemnerFushmanDina.html Dina Demner-Fushman] (ddemner at gmail dot com) </li><br />
<br />
<!-- <ul><br />
<li>NLM director's [https://nlmdirector.nlm.nih.gov/2022/08/03/meet-the-nlm-investigators-dr-demner-fushman-knows-the-answers-to-your-questions/ blog]</li><br />
<br />
<li>[https://www.youtube.com/watch?v=5kcP9wtrOII&t=1s Question answering for clinical decision support]</li><br />
<br />
<li>[https://nlmdirector.nlm.nih.gov/2017/09/19/rise-of-computational-linguistics-geeks/ The Rise of Computational Linguistics Geeks]</li><br />
</ul> --><br />
<!-- <li> Vice Chair: [https://www.toyota-ti.ac.jp/Lab/Denshi/COIN/people/makoto.miwa/ Makoto Miwa] (makoto-miwa at toyota-ti.ac.jp) </li> --><br />
<li> Vice Chair: [https://research.manchester.ac.uk/en/persons/sophia.ananiadou Sophia Ananiadou] (sophia.nactem at gmail dot com) </li><br />
<li>Secretary: [https://sbmi.uth.edu/faculty-and-staff/kirk-roberts.htm Kirk Roberts] (kirkroberts at gmail dot com) </li><br />
</ul><br />
<br />
<br />
<br />
<p>The term of the elected officers started in September, 2025 and is to end in 2028. The new elections <br />
are due in July 2028 and the nominations of the candidates in June 2028.<br />
<br />
<br />
The office terms for SIGBIOMED Chair, Secretary, and Vice Chair are expiring 1n 2028. <br><br />
These positions are elected by members, as described in the SIGBIOMED Constitution. <br><br />
<!-- Please send nominations (self-nominations are fine) by directly emailing any member of the nominating committee: --><br />
<br />
2025 Nominating committee:<br />
<br />
<br />
*Ben Holgate, King’s College London (benjamin.holgate kcl dot ac dot uk)<br />
*Ayah Zirikly, Johns Hopkins University (ayah.zirikly gmail dot com)<br />
*Steven Bethard, University of Arizona (bethard arizona dot edu)<br />
*Steven Bedrick, Oregon Health & Science University (bedricks ohsu dot edu)<br />
*Kirk Roberts, UTHealth Houston (kirk.roberts uth dot tmc dot edu)<br />
<br />
<!-- Nominations are due June 6, 2025. Voting will begin the week after.<br />
<br />
Note: Candidates must be ACL members in good standing. Also, both the candidate and nominator must be SIGBIOMED members in good standing. Functionally, this means simply being a member of the SIGBIOMED Google Group: https://groups.google.com/forum/#!forum/sigbiomed --><br />
<br />
<br />
== Membership ==<br />
<br />
To join [[SIGBIOMED| SIGBioMed]], join the [https://groups.google.com/forum/#!forum/sigbiomed SIG Google group] <br />
<br />
We also recommend joining https://groups.google.com/forum/#!forum/bionlpinfo -- this group is broader and more active than SIGBioMed.<br />
<br />
Please provide your affiliation and full name.<br />
<br />
<h4>Please note that applications to either group that do not provide at least minimal information about the user and a statement of interest will be automatically rejected</h4><br />
<br />
If you do not have access to Google groups, write an email to the secretary and include the following information:<br />
<br> A star (*) indicates required information<br />
<ul><br />
<li> I understand that my name and affiliation will be posted to the membership directory: YES/NO</li><br />
<li> First name*:</li><br />
<li> Last name*: </li><br />
<li> Email*:</li><br />
<li> Affiliation*:</li><br />
<li> Country*:</li><br />
<li> Home page:</li><br />
<li> ACL member/year:</li><br />
<li> Conferences to which you frequently submit/go:</li><br />
</ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SigBioMed_officers&diff=13905SigBioMed officers2025-08-12T18:19:30Z<p>Dina: </p>
<hr />
<div>[[SIGBIOMED]] <br />
<br />
<ul><br />
<li>Chair: [https://www.nlm.nih.gov/research/researchstaff/DemnerFushmanDina.html Dina Demner-Fushman] (ddemner at gmail dot com) </li><br />
<br />
<!-- <ul><br />
<li>NLM director's [https://nlmdirector.nlm.nih.gov/2022/08/03/meet-the-nlm-investigators-dr-demner-fushman-knows-the-answers-to-your-questions/ blog]</li><br />
<br />
<li>[https://www.youtube.com/watch?v=5kcP9wtrOII&t=1s Question answering for clinical decision support]</li><br />
<br />
<li>[https://nlmdirector.nlm.nih.gov/2017/09/19/rise-of-computational-linguistics-geeks/ The Rise of Computational Linguistics Geeks]</li><br />
</ul> --><br />
<!-- <li> Vice Chair: [https://www.toyota-ti.ac.jp/Lab/Denshi/COIN/people/makoto.miwa/ Makoto Miwa] (makoto-miwa at toyota-ti.ac.jp) </li> --><br />
<li> Vice Chair: [https://research.manchester.ac.uk/en/persons/sophia.ananiadou Sophia Ananiadou] (sophia.nactem at gmail dot com) </li><br />
<li>Secretary: [https://sbmi.uth.edu/faculty-and-staff/kirk-roberts.htm Kirk Roberts] (kirkroberts at gmail dot com) </li><br />
</ul><br />
<br />
<br />
<br />
<p>The term of the elected officers started in September, 2025 and is to end in 2028. The new elections <br />
are due in July 2028 and the nominations of the candidates in June 2028.<br />
<br />
<br />
The office terms for SIGBIOMED Chair, Secretary, and Vice Chair are expiring 1n 2028. <br><br />
These positions are elected by members, as described in the SIGBIOMED Constitution. <br><br />
<!-- Please send nominations (self-nominations are fine) by directly emailing any member of the nominating committee: --><br />
<br />
2025 Nominating committee:<br />
<br />
<br />
*Ben Holgate, King’s College London (benjamin.holgate kcl dot ac dot uk)<br />
*Ayah Zirikly, Johns Hopkins University (ayah.zirikly gmail dot com)<br />
*Steven Bethard, University of Arizona (bethard arizona dot edu)<br />
*Steven Bedrick, Oregon Health & Science University (bedricks ohsu dot edu)<br />
*Kirk Roberts, UTHealth Houston (kirk.roberts uth dot tmc dot edu)<br />
<br />
<!-- Nominations are due June 6, 2025. Voting will begin the week after.<br />
<br />
Note: Candidates must be ACL members in good standing. Also, both the candidate and nominator must be SIGBIOMED members in good standing. Functionally, this means simply being a member of the SIGBIOMED Google Group: https://groups.google.com/forum/#!forum/sigbiomed --><br />
<br />
<br />
== Membership ==<br />
<br />
To join [[SIGBIOMED| SIGBioMed]], join the [https://groups.google.com/forum/#!forum/sigbiomed SIG Google group] <br />
<br />
We also recommend joining https://groups.google.com/forum/#!forum/bionlpinfo -- this group is broader and more active than SIGBioMed.<br />
<br />
Please provide your affiliation and full name.<br />
<br />
If you do not have access to Google groups, write an email to the secretary and include the following information:<br />
<br> A star (*) indicates required information<br />
<ul><br />
<li> I understand that my name and affiliation will be posted to the membership directory: YES/NO</li><br />
<li> First name*:</li><br />
<li> Last name*: </li><br />
<li> Email*:</li><br />
<li> Affiliation*:</li><br />
<li> Country*:</li><br />
<li> Home page:</li><br />
<li> ACL member/year:</li><br />
<li> Conferences to which you frequently submit/go:</li><br />
</ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13902SIGBIOMED2025-08-08T04:17:09Z<p>Dina: /* Workshop Proceedings */</p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<br />
<br />
<br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<br />
[[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025]] <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May Albuquerque, New Mexico </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<br />
[[File: CL4Health2024.jpg|150px|thumb|left|CL4Health 2024 in-person presentations]] <br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<!--<br />
<br />
[[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] <br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<br />
== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
<br />
== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
<br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-1/ Proceedings of the 24th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2025.bionlp-share/ Proceedings of the 24th Workshop on Biomedical Language Processing (Shared Tasks)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=SIGBIOMED&diff=13901SIGBIOMED2025-08-08T04:13:13Z<p>Dina: </p>
<hr />
<div>__NOTOC__<br />
<br />
<h1>ACL Special Interest Group on Biomedical Natural Language Processing </h1><br />
<br />
<br />
<h4 style="width:85%;margin:0;background-color:#cedff2;font-size:120%;font-weight:bold;border:1px solid #a3b0bf;text-align:left;color:#000;padding:0.2em 0.4em;">Welcome to the home page for the Biomedical Natural Language Processing Special Interest Group of the Association for Computational Linguistics (ACL). This SIG is dedicated to language processing in the biological, biomedical, and clinical domain.<br />
<br />
<br />
Biomedical language processing poses specific technical challenges that make it of interest to general NLP practitioners and make it of compelling importance to the larger field of biomedical informatics. The purpose of the BioMed SIG is to bring together researchers in NLP, bioinformatics, medical (clinical) informatics, and computational biology, providing a venue (both wiki and workshop) for the promotion and dissemination of original research in this area.</h4><br />
<br />
<br />
<br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> Election of SIG Officers </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> Nominating committee for the 2016 BioNLP elections: Nigel Collier, Zhiyong Lu, Kirk Roberts.<br><br />
Please contact the nominating committee members to nominate candidates for the SIG chair and secretary positions.<br />
The candidates must be ACL members in good standing of the SIG. The nominators must be members in good standing of the SIG.<br />
The voting period will begin once the final slate of candidates and voting instructions are announced and no later than July 1st.<br />
The voting closes on July 31st, The results will be announced at the BioNLP workshop on August 12th. <br />
</div> --><br />
<br />
== Upcoming Events ==<br />
<br />
== Past Events ==<br />
<br />
[[File: BioNLP2025.jpg|150px|thumb|left|BioNLP 2025]] <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2025 Workshop and Shared Tasks]] at [https://2025.aclweb.org/ ACL], 1 August, 2025, Vienna, Austria </div><br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2025/ CL4Health 2025]. Patient-oriented language processing at [https://2025.naacl.org/ NAACL 2025], May Albuquerque, New Mexico </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2024|BioNLP 2024 Workshop and Shared Tasks]] at [https://2024.aclweb.org/ ACL], August 16, 2024, Bangkok, Thailand</div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://bionlp.nlm.nih.gov/cl4health2024/ CL4Health 2024]. Patient-oriented language processing at [https://lrec-coling-2024.org/ LREC-COLING], May 20, 2024, Turin, Italy </div><br />
<br />
[[File: CL4Health2024.jpg|150px|thumb|left|CL4Health 2024 in-person presentations]] <br />
<br />
<p> Thanks to our special volunteer Ibai Guillén-Pacho, Universidad Politécnica de Madrid<br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> PLAIN LANGUAGE ADAPTATION OF BIOMEDICAL ABSTRACTS [https://bionlp.nlm.nih.gov/plaba2023/ PLABA. @ TAC 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> TRECVID Task on Medical Video Question Answering<br />
[https://medvidqa.github.io/ MedVidQA 2023] </div><br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_2023|BioNLP 2023 Workshop and Shared Tasks]] at [https://2023.aclweb.org/ ACL], July 13, 2023, Toronto, Canada </div><br />
<!--<br />
<br />
[[File: BioNLP2023.jpg|150px|thumb|left|BioNLP 2023 in-person presentations]] <br />
<br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2022 Workshop]] at [https://www.2022.aclweb.org ACL], May 26, 2022, Dublin, Ireland </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2020 Workshop]] at [https://acl2020.org/ ACL 2020], July 9, 2020, Online. https://virtual.acl2020.org/workshop_W4.html (ACL registration required) </div><br />
<br />
<br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI). November 12, TAC 2019 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2019.html TREC Precision Medicine / Clinical Decision Support Track] November 13–15, 2019, TREC 2019 conference at NIST in Gaithersburg, MD, USA.</div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://www.amia.org/amia2019/workshops AMIA NLP-WG Presymposium], Saturday, November 16, 2019, Washington, DC. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2019 Workshop]] at [http://www.acl2019.org/EN/index.xhtml ACL 2019], August 1, 2019, Florence, Italy. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> BioNLP 2019 Shared Task [https://sites.google.com/view/mediqa2019 MEDIQA 2019] </div> --><br />
<!-- *<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://ohnlp.github.io/AMIANLPWG2018/NLP-WG.html AMIA NLP-WG Presymposium] at AMIA 2018, November 3, 2018, San Francisco, California. </div><br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [https://tac.nist.gov// Text Analysis Conference ] Drug-Drug Interaction Extraction from Drug Labels (DDI) and Systematic Review Information Extraction (SRIE) tracks. November 13-14 TAC 2018 workshop in Gaithersburg, Maryland, USA.</div> <br />
*<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.trec-cds.org/2018.html TREC Precision Medicine / Clinical Decision Support Track] November 14–16, 2018 TREC 2018 conference at NIST in Gaithersburg, MD, USA.</div> --> <br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2017 Workshop and Shared Tasks]] at ACL 2017, August 4, 2017, Vancouver, Canada. </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2016/ Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), December 12, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://text-machine.cs.uml.edu/clinical-nlp-2016 Clinical Natural Language Processing Workshop (ClinicalNLP), December 11, 2016, COLING 2016, Osaka, Japan] </div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2016 Workshop and Shared Tasks]] at ACL 2016, August, 2016, Berlin, Germany. <br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [http://www.nactem.ac.uk/biotxtm2014/index.php BioTxtM 2014] the Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing, May 31, 2014, Reykjavík, Iceland </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2014 Workshop ]] June 26-27, 2014, Baltimore, MD. </div> --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2015 Workshop ]] at ACL-IJCNLP 2015, July 30, 2015, Beijing, China. --><br />
<!-- == Recent Events == --><br />
<!-- <div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[BioNLP_Workshop|BioNLP 2018 Workshop]] at ACL 2018, July 19, 2018, Melbourne, Australia. </div> --><br />
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== Organization and Governance == <br />
<br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SIGBioMed constitution|BioMed SIG Constitution ]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[SigBioMed_officers|Officers and Membership information]]</div><br />
<div style="width:85%;margin:0;font-size:120%;text-align:left;"> [[Sigbiomed_members|The SIGBioMed organizing committee and members]] </div><br />
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== Workshop Proceedings ==<br />
https://www.aclweb.org/anthology/venues/bionlp/<br />
<ul><br />
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<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2024.bionlp-1/ Proceedings of the 23rd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2023.bionlp-1/ Proceedings of the 22nd Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2022.bionlp-1/ Proceedings of the 21st Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://aclanthology.org/volumes/2021.bionlp-1/ Proceedings of the 20th Workshop on Biomedical Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/2020.bionlp-1.pdf Proceedings of the 2020 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W19-50/ Proceedings of the 2019 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W18-23/ Proceedings of the 2018 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W17-23/ Proceedings of the 2017 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W16-2900.pdf Proceedings of the 2016 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/W15-3800.pdf Proceedings of the 2015 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://acl2014.org/acl2014/W14-34/index.html Proceedings of the 2014 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W13-19/ Proceedings of the 2013 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W12-24/ Proceedings of the 2012 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2011/ Proceedings of the 2011 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W10-19/ Proceedings of the 2010 Workshop on Biomedical Natural Language Processing]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/events/bionlp-2009/ Proceedings of the BioNLP 2009 Workshop]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W09-14 Proceedings of the BioNLP 2009 Workshop Companion Volume] BioNLP'09 shared task on Event Extraction</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://bmcbioinformatics.biomedcentral.com/articles/supplements/volume-9-supplement-11 Proceedings of the BioNLP 08 ACL Workshop: Themes in biomedical language processing.] BMC Bioinformatics supplement</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W07-10 BioNLP 07.] Biological, translational, and clinical language processing</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W06-33/ HLT-NAACL BioNLP 06 Workshop on Linking Natural Language and Biology]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[http://aclweb.org/anthology/W05-13 ACL-ISMB 2005 Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W04-12/ International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (NLPBA/BioNLP 04)]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W03-13/ ACL 2003 Workshop on Natural Language Processing in Biomedicine]</li><br />
<li style="text-align:left;margin-bottom:0.1em;">[https://www.aclweb.org/anthology/volumes/W02-03/ ACL-02 Workshop on Natural Language Processing in the Biomedical Domain]<br />
</li></ul><br />
<br />
== Related Workshop Proceedings ==<br />
<ul><li style="text-align:left;margin-bottom:0.1em;">[http://www.nactem.ac.uk/biotxtm2014/programme.php Fourth Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing (BioTxtM 2014)]<br />
</li></ul></div>Dinahttps://www.aclweb.org/aclwiki/index.php?title=File:BioNLP2025.jpg&diff=13900File:BioNLP2025.jpg2025-08-08T04:09:52Z<p>Dina: </p>
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