@Book{BioNLP:2011,
  editor    = {Kevin Bretonnel Cohen and Dina Demner-Fushman and Sophia Ananiadou and John Pestian and Jun'ichi Tsujii and Bonnie Webber}
  title     = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  url       = {http://www.aclweb.org/anthology/W11-02}
}

@InProceedings{thomas-EtAl:2011:BioNLP,
  author    = {Thomas, Philippe  and  Pietschmann, Stefan  and  Solt, Ill\'{e}s  and  Tikk, Domonkos  and  Leser, Ulf},
  title     = {Not all links are equal: Exploiting Dependency Types for the Extraction of Protein-Protein Interactions from Text},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {1--9},
  url       = {http://www.aclweb.org/anthology/W11-0201}
}

@InProceedings{rei-briscoe:2011:BioNLP,
  author    = {Rei, Marek  and  Briscoe, Ted},
  title     = {Unsupervised Entailment Detection between Dependency Graph Fragments},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {10--18},
  url       = {http://www.aclweb.org/anthology/W11-0202}
}

@InProceedings{hsu-EtAl:2011:BioNLP,
  author    = {Hsu, Chun-Nan  and  Kuo, Cheng-Ju  and  Cai, Congxing  and  Pendergrass, Sarah  and  Ritchie, Marylyn  and  Ambite, Jose Luis},
  title     = {Learning Phenotype Mapping for Integrating Large Genetic Data},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {19--27},
  url       = {http://www.aclweb.org/anthology/W11-0203}
}

@InProceedings{vanlandeghem-EtAl:2011:BioNLP,
  author    = {Van Landeghem, Sofie  and  Ginter, Filip  and  Van de Peer, Yves  and  Salakoski, Tapio},
  title     = {EVEX: A PubMed-Scale Resource for Homology-Based Generalization of Text Mining Predictions},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {28--37},
  url       = {http://www.aclweb.org/anthology/W11-0204}
}

@InProceedings{cohen-EtAl:2011:BioNLP,
  author    = {Cohen, K. Bretonnel  and  Christiansen, Thomas  and  Baumgartner Jr., William  and  Verspoor, Karin  and  Hunter, Lawrence},
  title     = {Fast and simple semantic class assignment for biomedical text},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {38--45},
  url       = {http://www.aclweb.org/anthology/W11-0205}
}

@InProceedings{pokkunuri-EtAl:2011:BioNLP,
  author    = {Pokkunuri, Sandeep  and  Ramakrishnan, Cartic  and  Riloff, Ellen  and  Hovy, Eduard  and  Burns, Gully},
  title     = {The Role of Information Extraction in the Design of a Document Triage Application for Biocuration},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {46--55},
  url       = {http://www.aclweb.org/anthology/W11-0206}
}

@InProceedings{benabacha-zweigenbaum:2011:BioNLP,
  author    = {Ben Abacha, Asma  and  Zweigenbaum, Pierre},
  title     = {Medical Entity Recognition: A Comparaison of Semantic and Statistical Methods},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {56--64},
  url       = {http://www.aclweb.org/anthology/W11-0207}
}

@InProceedings{usami-EtAl:2011:BioNLP,
  author    = {Usami, Yu  and  Cho, Han-Cheol  and  Okazaki, Naoaki  and  Tsujii, Jun'ichi},
  title     = {Automatic Acquisition of Huge Training Data for Bio-Medical Named Entity Recognition},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {65--73},
  url       = {http://www.aclweb.org/anthology/W11-0208}
}

@InProceedings{tan-kaliyaperumal-benis:2011:BioNLP,
  author    = {Tan, He  and  Kaliyaperumal, Rajaram  and  Benis, Nirupama},
  title     = {Building frame-based corpus on the basis of ontological domain knowledge},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {74--82},
  url       = {http://www.aclweb.org/anthology/W11-0209}
}

@InProceedings{batistanavarro-ananiadou:2011:BioNLP,
  author    = {Batista-Navarro, Riza Theresa  and  Ananiadou, Sophia},
  title     = {Building a Coreference-Annotated Corpus from the Domain of Biochemistry},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {83--91},
  url       = {http://www.aclweb.org/anthology/W11-0210}
}

@InProceedings{marciniak-mykowiecka:2011:BioNLP,
  author    = {Marciniak, Malgorzata  and  Mykowiecka, Agnieszka},
  title     = {Towards Morphologically Annotated Corpus of Hospital Discharge Reports in Polish},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {92--100},
  url       = {http://www.aclweb.org/anthology/W11-0211}
}

@InProceedings{blake-zheng:2011:BioNLP,
  author    = {Blake, Catherine  and  Zheng, Wu},
  title     = {In Search of Protein Locations},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {101--102},
  url       = {http://www.aclweb.org/anthology/W11-0212}
}

@InProceedings{neveol-wilbur-lu:2011:BioNLP,
  author    = {Neveol, Aurelie  and  Wilbur, W. John  and  Lu, Zhiyong},
  title     = {Automatic extraction of data deposition statements: where do the research results go?},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {103--104},
  url       = {http://www.aclweb.org/anthology/W11-0213}
}

@InProceedings{ohta-pyysalo-tsujii:2011:BioNLP,
  author    = {Ohta, Tomoko  and  Pyysalo, Sampo  and  Tsujii, Jun'ichi},
  title     = {From Pathways to Biomolecular Events: Opportunities and Challenges},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {105--113},
  url       = {http://www.aclweb.org/anthology/W11-0214}
}

@InProceedings{pyysalo-EtAl:2011:BioNLP,
  author    = {Pyysalo, Sampo  and  Ohta, Tomoko  and  Miwa, Makoto  and  Tsujii, Jun'ichi},
  title     = {Towards Exhaustive Event Extraction for Protein Modifications},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {114--123},
  url       = {http://www.aclweb.org/anthology/W11-0215}
}

@InProceedings{chowdhury-lavelli-moschitti:2011:BioNLP,
  author    = {Chowdhury, Faisal Md.  and  Lavelli, Alberto  and  Moschitti, Alessandro},
  title     = {A Study on Dependency Tree Kernels for Automatic Extraction of Protein-Protein Interaction},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {124--133},
  url       = {http://www.aclweb.org/anthology/W11-0216}
}

@InProceedings{white-cohen-hunter:2011:BioNLP,
  author    = {White, Elizabeth  and  Cohen, K. Bretonnel  and  Hunter, Larry},
  title     = {Hypothesis and Evidence Extraction from Full-Text Scientific Journal Articles},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {134--135},
  url       = {http://www.aclweb.org/anthology/W11-0217}
}

@InProceedings{stenetorp-pyysalo-tsujii:2011:BioNLP,
  author    = {Stenetorp, Pontus  and  Pyysalo, Sampo  and  Tsujii, Jun'ichi},
  title     = {SimSem: Fast Approximate String Matching in Relation to Semantic Category Disambiguation},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {136--145},
  url       = {http://www.aclweb.org/anthology/W11-0218}
}

@InProceedings{jung-EtAl:2011:BioNLP,
  author    = {Jung, Hyuckchul  and  Allen, James  and  Blaylock, Nate  and  de Beaumont, William  and  Galescu, Lucian  and  Swift, Mary},
  title     = {Building Timelines from Narrative Clinical Records: Initial Results Based-on Deep Natural Language Understanding},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {146--154},
  url       = {http://www.aclweb.org/anthology/W11-0219}
}

@InProceedings{yeganova-EtAl:2011:BioNLP,
  author    = {Yeganova, Lana  and  Comeau, Donald C.  and  Kim, Won  and  Wilbur, W. John},
  title     = {Text Mining Techniques for Leveraging Positively Labeled Data},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {155--163},
  url       = {http://www.aclweb.org/anthology/W11-0220}
}

@InProceedings{hara-EtAl:2011:BioNLP,
  author    = {Hara, Tadayoshi  and  Tateisi, Yuka  and  Kim, Jin-Dong  and  Miyao, Yusuke},
  title     = {Parsing Natural Language Queries for Life Science Knowledge},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {164--173},
  url       = {http://www.aclweb.org/anthology/W11-0221}
}

@InProceedings{liang-EtAl:2011:BioNLP,
  author    = {Liang, Shao Fen  and  Scott, Donia  and  Stevens, Robert  and  Rector, Alan},
  title     = {Unlocking Medical Ontologies for Non-Ontology Experts},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {174--181},
  url       = {http://www.aclweb.org/anthology/W11-0222}
}

@InProceedings{jimenoyepes-aronson:2011:BioNLP,
  author    = {Jimeno Yepes, Antonio  and  Aronson, Alan},
  title     = {Self-training and co-training in biomedical word sense disambiguation},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {182--183},
  url       = {http://www.aclweb.org/anthology/W11-0223}
}

@InProceedings{verhagen-pustejovsky:2011:BioNLP,
  author    = {Verhagen, Marc  and  Pustejovsky, James},
  title     = {Medstract - The Next Generation},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {184--185},
  url       = {http://www.aclweb.org/anthology/W11-0224}
}

@InProceedings{haruechaiyasak-EtAl:2011:BioNLP,
  author    = {Haruechaiyasak, Choochart  and  Pailai, Jaruwat  and  Viratyosin, Wasna  and  Kongkachandra, Rachada},
  title     = {ThaiHerbMiner: A Thai Herbal Medicine Mining and Visualizing Tool},
  booktitle = {Proceedings of BioNLP 2011 Workshop},
  month     = {June},
  year      = {2011},
  address   = {Portland, Oregon, USA},
  publisher = {Association for Computational Linguistics},
  pages     = {186--187},
  url       = {http://www.aclweb.org/anthology/W11-0225}
}