@Book{BioNLP:2009,
  editor    = {K. Bretonnel Cohen  and  Dina Demner-Fushman  and  Sophia Ananiadou  and  John Pestian  and  Jun'ichi Tsujii  and  Bonnie Webber},
  title     = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  url       = {http://www.aclweb.org/anthology/W09-13}
}

@InProceedings{pyysalo-EtAl:2009:BioNLP,
  author    = {Pyysalo, Sampo  and  Ohta, Tomoko  and  Kim, Jin-Dong  and  Tsujii, Jun'ichi},
  title     = {Static Relations: a Piece in the Biomedical Information Extraction Puzzle},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {1--9},
  url       = {http://www.aclweb.org/anthology/W09-1301}
}

@InProceedings{mowery-EtAl:2009:BioNLP,
  author    = {Mowery, Danielle  and  Harkema, Henk  and  Dowling, John  and  Lustgarten, Jonathan  and  Chapman, Wendy},
  title     = {Distinguishing Historical from Current Problems in Clinical Reports -- Which Textual Features Help?},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {10--18},
  url       = {http://www.aclweb.org/anthology/W09-1302}
}

@InProceedings{christensen-EtAl:2009:BioNLP,
  author    = {Christensen, Lee  and  Harkema, Henk  and  Haug, Peter  and  Irwin, Jeannie  and  Chapman, Wendy},
  title     = {ONYX: A System for the Semantic Analysis of Clinical Text},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {19--27},
  url       = {http://www.aclweb.org/anthology/W09-1303}
}

@InProceedings{morante-daelemans:2009:BioNLP,
  author    = {Morante, Roser  and  Daelemans, Walter},
  title     = {Learning the Scope of Hedge Cues in Biomedical Texts},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {28--36},
  url       = {http://www.aclweb.org/anthology/W09-1304}
}

@InProceedings{hahn-EtAl:2009:BioNLP,
  author    = {Hahn, Udo  and  Tomanek, Katrin  and  Buyko, Ekaterina  and  Kim, Jung-jae  and  Rebholz-Schuhmann, Dietrich},
  title     = {How Feasible and Robust is the Automatic Extraction of Gene Regulation Events? A Cross-Method Evaluation under Lab and Real-Life Conditions},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {37--45},
  url       = {http://www.aclweb.org/anthology/W09-1305}
}

@InProceedings{wong-martinez-cavedon:2009:BioNLP,
  author    = {Wong, Wern  and  Martinez, David  and  Cavedon, Lawrence},
  title     = {Extraction of Named Entities from Tables in Gene Mutation Literature},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {46--54},
  url       = {http://www.aclweb.org/anthology/W09-1306}
}

@InProceedings{tan-lambrix:2009:BioNLP,
  author    = {Tan, He  and  Lambrix, Patrick},
  title     = {Selecting an Ontology for Biomedical Text Mining},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {55--62},
  url       = {http://www.aclweb.org/anthology/W09-1307}
}

@InProceedings{xu-EtAl:2009:BioNLP,
  author    = {Xu, Rong  and  Morgan, Alexander A.  and  Das, Amar  and  Garber, Alan},
  title     = {Investigation of Unsupervised Pattern Learning Techniques for Bootstrap Construction of a Medical Treatment Lexicon},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {63--70},
  url       = {http://www.aclweb.org/anthology/W09-1308}
}

@InProceedings{stevenson-EtAl:2009:BioNLP,
  author    = {Stevenson, Mark  and  Guo, Yikun  and  Alamri, Abdulaziz  and  Gaizauskas, Robert},
  title     = {Disambiguation of Biomedical Abbreviations},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {71--79},
  url       = {http://www.aclweb.org/anthology/W09-1309}
}

@InProceedings{kappeler-kaljurand-rinaldi:2009:BioNLP,
  author    = {Kappeler, Thomas  and  Kaljurand, Kaarel  and  Rinaldi, Fabio},
  title     = {TX Task: Automatic Detection of Focus Organisms in Biomedical Publications},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {80--88},
  url       = {http://www.aclweb.org/anthology/W09-1310}
}

@InProceedings{hamon-grabar:2009:BioNLP,
  author    = {Hamon, Thierry  and  Grabar, Natalia},
  title     = {Exploring Graph Structure for Detection of Reliability Zones within Synonym Resources: Experiment with the Gene Ontology},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {89--96},
  url       = {http://www.aclweb.org/anthology/W09-1311}
}

@InProceedings{jin-EtAl:2009:BioNLP,
  author    = {Jin, Feng  and  Huang, Minlie  and  Lu, Zhiyong  and  Zhu, Xiaoyan},
  title     = {Towards Automatic Generation of Gene Summary},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {97--105},
  url       = {http://www.aclweb.org/anthology/W09-1312}
}

@InProceedings{ohta-EtAl:2009:BioNLP,
  author    = {Ohta, Tomoko  and  Kim, Jin-Dong  and  Pyysalo, Sampo  and  Wang, Yue  and  Tsujii, Jun'ichi},
  title     = {Incorporating GENETAG-style annotation to GENIA corpus},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {106--107},
  url       = {http://www.aclweb.org/anthology/W09-1313}
}

@InProceedings{sun-EtAl:2009:BioNLP,
  author    = {Sun, Lin  and  Korhonen, Anna  and  Silins, Ilona  and  Stenius, Ulla},
  title     = {User-Driven Development of Text Mining Resources for Cancer Risk Assessment},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {108--116},
  url       = {http://www.aclweb.org/anthology/W09-1314}
}

@InProceedings{erdem-yeniterzi:2009:BioNLP,
  author    = {Erdem, Esra  and  Yeniterzi, Reyyan},
  title     = {Transforming Controlled Natural Language Biomedical Queries into Answer Set Programs},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {117--124},
  url       = {http://www.aclweb.org/anthology/W09-1315}
}

@InProceedings{bashyam-taira:2009:BioNLP,
  author    = {Bashyam, Vijayaraghavan  and  Taira, Ricky K},
  title     = {Incorporating Syntactic Dependency Information towards Improved Coding of Lengthy Medical Concepts in Clinical Reports},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {125--132},
  url       = {http://www.aclweb.org/anthology/W09-1316}
}

@InProceedings{liu-blouin-keselj:2009:BioNLP,
  author    = {Liu, Haibin  and  Blouin, Christian  and  Keselj, Vlado},
  title     = {Identifying Interaction Sentences from Biological Literature Using Automatically Extracted Patterns},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {133--141},
  url       = {http://www.aclweb.org/anthology/W09-1317}
}

@InProceedings{conway-doan-collier:2009:BioNLP,
  author    = {Conway, Mike  and  Doan, Son  and  Collier, Nigel},
  title     = {Using Hedges to Enhance a Disease Outbreak Report Text Mining System},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {142--143},
  url       = {http://www.aclweb.org/anthology/W09-1318}
}

@InProceedings{neveol-EtAl:2009:BioNLP,
  author    = {Neveol, Aurelie  and  Kim, Won  and  Wilbur, W. John  and  Lu, Zhiyong},
  title     = {Exploring Two Biomedical Text Genres for Disease Recognition},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {144--152},
  url       = {http://www.aclweb.org/anthology/W09-1319}
}

@InProceedings{leonhard:2009:BioNLP,
  author    = {Leonhard, Annette},
  title     = {Towards Retrieving Relevant Information for Answering Clinical Comparison Questions},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {153--161},
  url       = {http://www.aclweb.org/anthology/W09-1320}
}

@InProceedings{uematsu-kim-tsujii:2009:BioNLP,
  author    = {Uematsu, Sumire  and  Kim, Jin-Dong  and  Tsujii, Jun'ichi},
  title     = {Bridging the Gap between Domain-Oriented and Linguistically-Oriented Semantics},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {162--170},
  url       = {http://www.aclweb.org/anthology/W09-1321}
}

@InProceedings{cao-EtAl:2009:BioNLP,
  author    = {Cao, Yong-Gang  and  Ely, John  and  Antieau, Lamont  and  Yu, Hong},
  title     = {Evaluation of the Clinical Question Answering Presentation},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {171--178},
  url       = {http://www.aclweb.org/anthology/W09-1322}
}

@InProceedings{matykiewicz-duch-pestian:2009:BioNLP,
  author    = {Matykiewicz, Pawel  and  Duch, Wlodzislaw  and  Pestian, John},
  title     = {Clustering Semantic Spaces of Suicide Notes and Newsgroups Articles.},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {179--184},
  url       = {http://www.aclweb.org/anthology/W09-1323}
}

@InProceedings{aramaki-EtAl:2009:BioNLP,
  author    = {Aramaki, Eiji  and  Miura, Yasuhide  and  Tonoike, Masatsugu  and  Ohkuma, Tomoko  and  Mashuichi, Hiroshi  and  Ohe, Kazuhiko},
  title     = {TEXT2TABLE: Medical Text Summarization System Based on Named Entity Recognition and Modality Identification},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {185--192},
  url       = {http://www.aclweb.org/anthology/W09-1324}
}

@InProceedings{liakata-q-soldatova:2009:BioNLP,
  author    = {Liakata, Maria  and  Q, Claire  and  Soldatova, Larisa N.},
  title     = {Semantic Annotation of Papers: Interface \& Enrichment Tool (SAPIENT)},
  booktitle = {Proceedings of the BioNLP 2009 Workshop},
  month     = {June},
  year      = {2009},
  address   = {Boulder, Colorado},
  publisher = {Association for Computational Linguistics},
  pages     = {193--200},
  url       = {http://www.aclweb.org/anthology/W09-1325}
}