@Book{BioNLP16:2016,
  editor    = {Kevin Bretonnel Cohen, University of Colorado School of Medicine  and  Dina Demner-Fushman, National Library of Medicine  and  Sophia Ananiadou, National Centre for Text Mining and University of Manchester, UK  and  Jun-ichi Tsujii, National Institute of Advanced Industrial Science and Technology, Japan},
  title     = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  url       = {http://anthology.aclweb.org/W16-29}
}

@InProceedings{castano-EtAl:2016:BioNLP16,
  author    = {Castano, Jose  and  Gambarte, Mar\'{i}a Laura  and  Park, Hee Joon  and  Avila Williams, Maria del Pilar  and  Perez, David  and  Campos, Fernando  and  Luna, Daniel  and  Benitez, Sonia  and  Berinsky, Hernan  and  Zanetti, Sof\'{i}a},
  title     = {A Machine Learning Approach to Clinical Terms Normalization},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {1--11},
  url       = {http://anthology.aclweb.org/W16-2901}
}

@InProceedings{pilehvar-collier:2016:BioNLP16,
  author    = {Pilehvar, Mohammad Taher  and  Collier, Nigel},
  title     = {Improved Semantic Representation for Domain-Specific Entities},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {12--16},
  url       = {http://anthology.aclweb.org/W16-2902}
}

@InProceedings{shivade-EtAl:2016:BioNLP16,
  author    = {Shivade, Chaitanya  and  de Marneffe, Marie-Catherine  and  Fosler-Lussier, Eric  and  Lai, Albert M.},
  title     = {Identification, characterization, and grounding of gradable terms in clinical text},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {17--26},
  url       = {http://anthology.aclweb.org/W16-2903}
}

@InProceedings{sheikhshab-EtAl:2016:BioNLP16,
  author    = {Sheikhshab, Golnar  and  Starks, Elizabeth  and  Karsan, Aly  and  Sarkar, Anoop  and  Birol, Inanc},
  title     = {Graph-based Semi-supervised Gene Mention Tagging},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {27--35},
  url       = {http://anthology.aclweb.org/W16-2904}
}

@InProceedings{freitag-niekrasz:2016:BioNLP16,
  author    = {Freitag, Dayne  and  Niekrasz, John},
  title     = {Feature Derivation for Exploitation of Distant Annotation via Pattern Induction against Dependency Parses},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {36--45},
  url       = {http://anthology.aclweb.org/W16-2905}
}

@InProceedings{kilicoglu:2016:BioNLP16,
  author    = {Kilicoglu, Halil},
  title     = {Inferring Implicit Causal Relationships in Biomedical Literature},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {46--55},
  url       = {http://anthology.aclweb.org/W16-2906}
}

@InProceedings{valenzuelaescarcega-EtAl:2016:BioNLP16,
  author    = {Valenzuela-Esc\'{a}rcega, Marco A.  and  Hahn-Powell, Gus  and  Bell, Dane  and  Surdeanu, Mihai},
  title     = {SnapToGrid: From Statistical to Interpretable Models for Biomedical Information Extraction},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {56--65},
  url       = {http://anthology.aclweb.org/W16-2907}
}

@InProceedings{singh-qi:2016:BioNLP16,
  author    = {Singh, Ritambhara  and  Qi, Yanjun},
  title     = {Character based String Kernels for Bio-Entity Relation Detection},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {66--71},
  url       = {http://anthology.aclweb.org/W16-2908}
}

@InProceedings{siu-ernst-weikum:2016:BioNLP16,
  author    = {Siu, Amy  and  Ernst, Patrick  and  Weikum, Gerhard},
  title     = {Disambiguation of entities in MEDLINE abstracts by combining MeSH terms with knowledge},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {72--76},
  url       = {http://anthology.aclweb.org/W16-2909}
}

@InProceedings{tulkens-suster-daelemans:2016:BioNLP16,
  author    = {Tulkens, Stephan  and  Suster, Simon  and  Daelemans, Walter},
  title     = {Using Distributed Representations to Disambiguate Biomedical and Clinical Concepts},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {77--82},
  url       = {http://anthology.aclweb.org/W16-2910}
}

@InProceedings{miller-dligach-savova:2016:BioNLP16,
  author    = {Miller, Timothy  and  Dligach, Dmitriy  and  Savova, Guergana},
  title     = {Unsupervised Document Classification with Informed Topic Models},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {83--91},
  url       = {http://anthology.aclweb.org/W16-2911}
}

@InProceedings{velupillai-EtAl:2016:BioNLP16,
  author    = {Velupillai, Sumithra  and  Mowery, Danielle L  and  Conway, Mike  and  Hurdle, John  and  Kious, Brent},
  title     = {Vocabulary Development To Support Information Extraction of Substance Abuse from Psychiatry Notes},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {92--101},
  url       = {http://anthology.aclweb.org/W16-2912}
}

@InProceedings{hakala-EtAl:2016:BioNLP16,
  author    = {Hakala, Kai  and  Kaewphan, Suwisa  and  Salakoski, Tapio  and  Ginter, Filip},
  title     = {Syntactic analyses and named entity recognition for PubMed and PubMed Central — up-to-the-minute},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {102--107},
  url       = {http://anthology.aclweb.org/W16-2913}
}

@InProceedings{lin-EtAl:2016:BioNLP16,
  author    = {Lin, Chen  and  Miller, Timothy  and  Dligach, Dmitriy  and  Bethard, Steven  and  Savova, Guergana},
  title     = {Improving Temporal Relation Extraction with Training Instance Augmentation},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {108--113},
  url       = {http://anthology.aclweb.org/W16-2914}
}

@InProceedings{brokos-malakasiotis-androutsopoulos:2016:BioNLP16,
  author    = {Brokos, Georgios-Ioannis  and  Malakasiotis, Prodromos  and  Androutsopoulos, Ion},
  title     = {Using Centroids of Word Embeddings and Word Mover's Distance for Biomedical Document Retrieval in Question Answering},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {114--118},
  url       = {http://anthology.aclweb.org/W16-2915}
}

@InProceedings{spranger-palaniappan-gosh:2016:BioNLP16,
  author    = {Spranger, Michael  and  Palaniappan, Sucheendra  and  Gosh, Samik},
  title     = {Measuring the State of the Art of Automated Pathway Curation Using Graph Algorithms - A Case Study of the mTOR Pathway},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {119--127},
  url       = {http://anthology.aclweb.org/W16-2916}
}

@InProceedings{jiang-calix-gupta:2016:BioNLP16,
  author    = {Jiang, Keyuan  and  Calix, Ricardo  and  Gupta, Matrika},
  title     = {Construction of a Personal Experience Tweet Corpus for Health Surveillance},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {128--135},
  url       = {http://anthology.aclweb.org/W16-2917}
}

@InProceedings{limsopatham-collier:2016:BioNLP16,
  author    = {Limsopatham, Nut  and  Collier, Nigel},
  title     = {Modelling the Combination of Generic and Target Domain Embeddings in a Convolutional Neural Network for Sentence Classification},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {136--140},
  url       = {http://anthology.aclweb.org/W16-2918}
}

@InProceedings{yeganova-EtAl:2016:BioNLP16,
  author    = {Yeganova, Lana  and  Kim, Won  and  Kim, Sun  and  Islamaj Do\u{g}an, Rezarta  and  Liu, Wanli  and  Comeau, Donald C  and  Lu, Zhiyong  and  Wilbur, W John},
  title     = {PubTermVariants: biomedical term variants and their use for PubMed search},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {141--145},
  url       = {http://anthology.aclweb.org/W16-2919}
}

@InProceedings{hahnpowell-EtAl:2016:BioNLP16,
  author    = {Hahn-Powell, Gus  and  Bell, Dane  and  Valenzuela-Esc\'{a}rcega, Marco A.  and  Surdeanu, Mihai},
  title     = {This before That: Causal Precedence in the Biomedical Domain},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {146--155},
  url       = {http://anthology.aclweb.org/W16-2920}
}

@InProceedings{cotik-EtAl:2016:BioNLP16,
  author    = {Cotik, Viviana  and  Stricker, Vanesa  and  Vivaldi, Jorge  and  Rodriguez, Horacio},
  title     = {Syntactic methods for negation detection in radiology reports in Spanish},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {156--165},
  url       = {http://anthology.aclweb.org/W16-2921}
}

@InProceedings{chiu-EtAl:2016:BioNLP16,
  author    = {Chiu, Billy  and  Crichton, Gamal  and  Korhonen, Anna  and  Pyysalo, Sampo},
  title     = {How to Train good Word Embeddings for Biomedical NLP},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {166--174},
  url       = {http://anthology.aclweb.org/W16-2922}
}

@InProceedings{connolly-glass-pestian:2016:BioNLP16,
  author    = {Connolly, Brian  and  Glass, Benjamin  and  Pestian, John},
  title     = {An Information Foraging Approach to Determining the Number of Relevant Features},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {175--180},
  url       = {http://anthology.aclweb.org/W16-2923}
}

@InProceedings{chapman-EtAl:2016:BioNLP16,
  author    = {Chapman, Brian E.  and  Mowery, Danielle L  and  Narasimhan, Evan  and  Patel, Neel  and  Chapman, Wendy  and  Heilbrun, Marta},
  title     = {Assessing the Feasibility of an Automated Suggestion System for Communicating Critical Findings from Chest Radiology Reports to Referring Physicians},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {181--185},
  url       = {http://anthology.aclweb.org/W16-2924}
}

@InProceedings{kocbek-groza:2016:BioNLP16,
  author    = {Kocbek, Simon  and  Groza, Tudor},
  title     = {Building a dictionary of lexical variants for phenotype descriptors},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {186--190},
  url       = {http://anthology.aclweb.org/W16-2925}
}

@InProceedings{jacobson-dalianis:2016:BioNLP16,
  author    = {Jacobson, Olof  and  Dalianis, Hercules},
  title     = {Applying deep learning on electronic health records in Swedish to predict healthcare-associated infections},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {191--195},
  url       = {http://anthology.aclweb.org/W16-2926}
}

@InProceedings{gorrell-EtAl:2016:BioNLP16,
  author    = {Gorrell, Genevieve  and  Oduola, Sherifat  and  Roberts, Angus  and  Craig, Tom  and  Morgan, Craig  and  Stewart, Rob},
  title     = {Identifying First Episodes of Psychosis in Psychiatric Patient Records using Machine Learning},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {196--205},
  url       = {http://anthology.aclweb.org/W16-2927}
}

@InProceedings{sahu-EtAl:2016:BioNLP16,
  author    = {Sahu, Sunil  and  Anand, Ashish  and  Oruganty, Krishnadev  and  Gattu, Mahanandeeshwar},
  title     = {Relation extraction from clinical texts using domain invariant convolutional neural network},
  booktitle = {Proceedings of the 15th Workshop on Biomedical Natural Language Processing},
  month     = {August},
  year      = {2016},
  address   = {Berlin, Germany},
  publisher = {Association for Computational Linguistics},
  pages     = {206--215},
  url       = {http://anthology.aclweb.org/W16-2928}
}