@proceedings{ws-2016-biomedical,
    title = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2900/"
}
@inproceedings{castano-etal-2016-machine,
    title = "A Machine Learning Approach to Clinical Terms Normalization",
    author = "Casta{\~n}o, Jos{\'e}  and
      Gambarte, Mar{\'i}a Laura  and
      Park, Hee Joon  and
      del Pilar Avila Williams, Maria  and
      P{\'e}rez, David  and
      Campos, Fernando  and
      Luna, Daniel  and
      Ben{\'i}tez, Sonia  and
      Berinsky, Hern{\'a}n  and
      Zanetti, Sof{\'i}a",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2901/",
    doi = "10.18653/v1/W16-2901",
    pages = "1--11"
}
@inproceedings{pilehvar-collier-2016-improved,
    title = "Improved Semantic Representation for Domain-Specific Entities",
    author = "Pilehvar, Mohammad Taher  and
      Collier, Nigel",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2902/",
    doi = "10.18653/v1/W16-2902",
    pages = "12--16"
}
@inproceedings{shivade-etal-2016-identification,
    title = "Identification, characterization, and grounding of gradable terms in clinical text",
    author = "Shivade, Chaitanya  and
      de Marneffe, Marie-Catherine  and
      Fosler-Lussier, Eric  and
      Lai, Albert M.",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2903/",
    doi = "10.18653/v1/W16-2903",
    pages = "17--26"
}
@inproceedings{sheikhshab-etal-2016-graph,
    title = "Graph-based Semi-supervised Gene Mention Tagging",
    author = "Sheikhshab, Golnar  and
      Starks, Elizabeth  and
      Karsan, Aly  and
      Sarkar, Anoop  and
      Birol, Inanc",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2904/",
    doi = "10.18653/v1/W16-2904",
    pages = "27--35"
}
@inproceedings{freitag-niekrasz-2016-feature,
    title = "Feature Derivation for Exploitation of Distant Annotation via Pattern Induction against Dependency Parses",
    author = "Freitag, Dayne  and
      Niekrasz, John",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2905/",
    doi = "10.18653/v1/W16-2905",
    pages = "36--45"
}
@inproceedings{kilicoglu-2016-inferring,
    title = "Inferring Implicit Causal Relationships in Biomedical Literature",
    author = "Kilicoglu, Halil",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2906/",
    doi = "10.18653/v1/W16-2906",
    pages = "46--55"
}
@inproceedings{valenzuela-escarcega-etal-2016-snaptogrid,
    title = "{S}nap{T}o{G}rid: From Statistical to Interpretable Models for Biomedical Information Extraction",
    author = "Valenzuela-Esc{\'a}rcega, Marco A.  and
      Hahn-Powell, Gus  and
      Bell, Dane  and
      Surdeanu, Mihai",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2907/",
    doi = "10.18653/v1/W16-2907",
    pages = "56--65"
}
@inproceedings{singh-qi-2016-character,
    title = "Character based String Kernels for Bio-Entity Relation Detection",
    author = "Singh, Ritambhara  and
      Qi, Yanjun",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2908/",
    doi = "10.18653/v1/W16-2908",
    pages = "66--71"
}
@inproceedings{siu-etal-2016-disambiguation,
    title = "Disambiguation of entities in {MEDLINE} abstracts by combining {M}e{SH} terms with knowledge",
    author = "Siu, Amy  and
      Ernst, Patrick  and
      Weikum, Gerhard",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2909/",
    doi = "10.18653/v1/W16-2909",
    pages = "72--76"
}
@inproceedings{tulkens-etal-2016-using,
    title = "Using Distributed Representations to Disambiguate Biomedical and Clinical Concepts",
    author = "Tulkens, St{\'e}phan  and
      Suster, Simon  and
      Daelemans, Walter",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2910/",
    doi = "10.18653/v1/W16-2910",
    pages = "77--82"
}
@inproceedings{miller-etal-2016-unsupervised,
    title = "Unsupervised Document Classification with Informed Topic Models",
    author = "Miller, Timothy  and
      Dligach, Dmitriy  and
      Savova, Guergana",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2911/",
    doi = "10.18653/v1/W16-2911",
    pages = "83--91"
}
@inproceedings{velupillai-etal-2016-vocabulary,
    title = "Vocabulary Development To Support Information Extraction of Substance Abuse from Psychiatry Notes",
    author = "Velupillai, Sumithra  and
      Mowery, Danielle L.  and
      Conway, Mike  and
      Hurdle, John  and
      Kious, Brent",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2912/",
    doi = "10.18653/v1/W16-2912",
    pages = "92--101"
}
@inproceedings{hakala-etal-2016-syntactic,
    title = "Syntactic analyses and named entity recognition for {P}ub{M}ed and {P}ub{M}ed Central {---} up-to-the-minute",
    author = "Hakala, Kai  and
      Kaewphan, Suwisa  and
      Salakoski, Tapio  and
      Ginter, Filip",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2913/",
    doi = "10.18653/v1/W16-2913",
    pages = "102--107"
}
@inproceedings{lin-etal-2016-improving,
    title = "Improving Temporal Relation Extraction with Training Instance Augmentation",
    author = "Lin, Chen  and
      Miller, Timothy  and
      Dligach, Dmitriy  and
      Bethard, Steven  and
      Savova, Guergana",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2914/",
    doi = "10.18653/v1/W16-2914",
    pages = "108--113"
}
@inproceedings{brokos-etal-2016-using,
    title = "Using Centroids of Word Embeddings and Word Mover{'}s Distance for Biomedical Document Retrieval in Question Answering",
    author = "Brokos, Georgios-Ioannis  and
      Malakasiotis, Prodromos  and
      Androutsopoulos, Ion",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2915/",
    doi = "10.18653/v1/W16-2915",
    pages = "114--118"
}
@inproceedings{spranger-etal-2016-measuring,
    title = "Measuring the State of the Art of Automated Pathway Curation Using Graph Algorithms - A Case Study of the m{TOR} Pathway",
    author = "Spranger, Michael  and
      Palaniappan, Sucheendra  and
      Gosh, Samik",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2916/",
    doi = "10.18653/v1/W16-2916",
    pages = "119--127"
}
@inproceedings{jiang-etal-2016-construction,
    title = "Construction of a Personal Experience Tweet Corpus for Health Surveillance",
    author = "Jiang, Keyuan  and
      Calix, Ricardo  and
      Gupta, Matrika",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2917/",
    doi = "10.18653/v1/W16-2917",
    pages = "128--135"
}
@inproceedings{limsopatham-collier-2016-modelling,
    title = "Modelling the Combination of Generic and Target Domain Embeddings in a Convolutional Neural Network for Sentence Classification",
    author = "Limsopatham, Nut  and
      Collier, Nigel",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2918/",
    doi = "10.18653/v1/W16-2918",
    pages = "136--140"
}
@inproceedings{yeganova-etal-2016-pubtermvariants,
    title = "{P}ub{T}erm{V}ariants: biomedical term variants and their use for {P}ub{M}ed search",
    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",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2919/",
    doi = "10.18653/v1/W16-2919",
    pages = "141--145"
}
@inproceedings{hahn-powell-etal-2016-causal,
    title = "This before That: Causal Precedence in the Biomedical Domain",
    author = "Hahn-Powell, Gus  and
      Bell, Dane  and
      Valenzuela-Esc{\'a}rcega, Marco A.  and
      Surdeanu, Mihai",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2920/",
    doi = "10.18653/v1/W16-2920",
    pages = "146--155"
}
@inproceedings{cotik-etal-2016-syntactic,
    title = "Syntactic methods for negation detection in radiology reports in {S}panish",
    author = "Cotik, Viviana  and
      Stricker, Vanesa  and
      Vivaldi, Jorge  and
      Rodriguez, Horacio",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2921/",
    doi = "10.18653/v1/W16-2921",
    pages = "156--165"
}
@inproceedings{chiu-etal-2016-train,
    title = "How to Train good Word Embeddings for Biomedical {NLP}",
    author = "Chiu, Billy  and
      Crichton, Gamal  and
      Korhonen, Anna  and
      Pyysalo, Sampo",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2922/",
    doi = "10.18653/v1/W16-2922",
    pages = "166--174"
}
@inproceedings{connolly-etal-2016-information,
    title = "An Information Foraging Approach to Determining the Number of Relevant Features",
    author = "Connolly, Brian  and
      Glass, Benjamin  and
      Pestian, John",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2923/",
    doi = "10.18653/v1/W16-2923",
    pages = "175--180"
}
@inproceedings{chapman-etal-2016-assessing,
    title = "Assessing the Feasibility of an Automated Suggestion System for Communicating Critical Findings from Chest Radiology Reports to Referring Physicians",
    author = "Chapman, Brian E.  and
      Mowery, Danielle L.  and
      Narasimhan, Evan  and
      Patel, Neel  and
      Chapman, Wendy  and
      Heilbrun, Marta",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2924/",
    doi = "10.18653/v1/W16-2924",
    pages = "181--185"
}
@inproceedings{kocbek-groza-2016-building,
    title = "Building a dictionary of lexical variants for phenotype descriptors",
    author = "Kocbek, Simon  and
      Groza, Tudor",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2925/",
    doi = "10.18653/v1/W16-2925",
    pages = "186--190"
}
@inproceedings{jacobson-dalianis-2016-applying,
    title = "Applying deep learning on electronic health records in {S}wedish to predict healthcare-associated infections",
    author = "Jacobson, Olof  and
      Dalianis, Hercules",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2926/",
    doi = "10.18653/v1/W16-2926",
    pages = "191--195"
}
@inproceedings{gorrell-etal-2016-identifying,
    title = "Identifying First Episodes of Psychosis in Psychiatric Patient Records using Machine Learning",
    author = "Gorrell, Genevieve  and
      Oduola, Sherifat  and
      Roberts, Angus  and
      Craig, Tom  and
      Morgan, Craig  and
      Stewart, Rob",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2927/",
    doi = "10.18653/v1/W16-2927",
    pages = "196--205"
}
@inproceedings{sahu-etal-2016-relation,
    title = "Relation extraction from clinical texts using domain invariant convolutional neural network",
    author = "Sahu, Sunil  and
      Anand, Ashish  and
      Oruganty, Krishnadev  and
      Gattu, Mahanandeeshwar",
    editor = "Cohen, Kevin Bretonnel  and
      Demner-Fushman, Dina  and
      Ananiadou, Sophia  and
      Tsujii, Jun-ichi",
    booktitle = "Proceedings of the 15th Workshop on Biomedical Natural Language Processing",
    month = aug,
    year = "2016",
    address = "Berlin, Germany",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W16-2928/",
    doi = "10.18653/v1/W16-2928",
    pages = "206--215"
}