@proceedings{ws-2018-bionlp,
    title = "Proceedings of the {B}io{NLP} 2018 workshop",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2300/"
}
@inproceedings{newman-griffis-zirikly-2018-embedding,
    title = "Embedding Transfer for Low-Resource Medical Named Entity Recognition: A Case Study on Patient Mobility",
    author = "Newman-Griffis, Denis  and
      Zirikly, Ayah",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2301/",
    doi = "10.18653/v1/W18-2301",
    pages = "1--11"
}
@inproceedings{jeblee-etal-2018-multi,
    title = "Multi-task learning for interpretable cause of death classification using key phrase prediction",
    author = "Jeblee, Serena  and
      Gomes, Mireille  and
      Hirst, Graeme",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2302/",
    doi = "10.18653/v1/W18-2302",
    pages = "12--17"
}
@inproceedings{chokwijitkul-etal-2018-identifying,
    title = "Identifying Risk Factors For Heart Disease in Electronic Medical Records: A Deep Learning Approach",
    author = "Chokwijitkul, Thanat  and
      Nguyen, Anthony  and
      Hassanzadeh, Hamed  and
      Perez, Siegfried",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2303/",
    doi = "10.18653/v1/W18-2303",
    pages = "18--27"
}
@inproceedings{saputra-etal-2018-keyphrases,
    title = "Keyphrases Extraction from User-Generated Contents in Healthcare Domain Using Long Short-Term Memory Networks",
    author = "Saputra, Ilham Fathy  and
      Mahendra, Rahmad  and
      Wicaksono, Alfan Farizki",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2304/",
    doi = "10.18653/v1/W18-2304",
    pages = "28--34"
}
@inproceedings{seva-etal-2018-identifying,
    title = "Identifying Key Sentences for Precision Oncology Using Semi-Supervised Learning",
    author = "{\v{S}}eva, Jurica  and
      Wackerbauer, Martin  and
      Leser, Ulf",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2305/",
    doi = "10.18653/v1/W18-2305",
    pages = "35--46"
}
@inproceedings{wang-etal-2018-ontology,
    title = "Ontology alignment in the biomedical domain using entity definitions and context",
    author = "Wang, Lucy Lu  and
      Bhagavatula, Chandra  and
      Neumann, Mark  and
      Lo, Kyle  and
      Wilhelm, Chris  and
      Ammar, Waleed",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2306/",
    doi = "10.18653/v1/W18-2306",
    pages = "47--55"
}
@inproceedings{galea-etal-2018-sub,
    title = "Sub-word information in pre-trained biomedical word representations: evaluation and hyper-parameter optimization",
    author = "Galea, Dieter  and
      Laponogov, Ivan  and
      Veselkov, Kirill",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2307/",
    doi = "10.18653/v1/W18-2307",
    pages = "56--66"
}
@inproceedings{jin-szolovits-2018-pico,
    title = "{PICO} Element Detection in Medical Text via Long Short-Term Memory Neural Networks",
    author = "Jin, Di  and
      Szolovits, Peter",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2308/",
    doi = "10.18653/v1/W18-2308",
    pages = "67--75"
}
@inproceedings{wang-etal-2018-coding,
    title = "Coding Structures and Actions with the {COSTA} Scheme in Medical Conversations",
    author = "Wang, Nan  and
      Song, Yan  and
      Xia, Fei",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2309/",
    doi = "10.18653/v1/W18-2309",
    pages = "76--86"
}
@inproceedings{pfeiffer-etal-2018-neural,
    title = "A Neural Autoencoder Approach for Document Ranking and Query Refinement in Pharmacogenomic Information Retrieval",
    author = {Pfeiffer, Jonas  and
      Broscheit, Samuel  and
      Gemulla, Rainer  and
      G{\"o}schl, Mathias},
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2310/",
    doi = "10.18653/v1/W18-2310",
    pages = "87--97"
}
@inproceedings{bjorne-salakoski-2018-biomedical,
    title = "Biomedical Event Extraction Using Convolutional Neural Networks and Dependency Parsing",
    author = {Bj{\"o}rne, Jari  and
      Salakoski, Tapio},
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2311/",
    doi = "10.18653/v1/W18-2311",
    pages = "98--108"
}
@inproceedings{sharma-etal-2018-bioama,
    title = "{B}io{AMA}: Towards an End to End {B}io{M}edical Question Answering System",
    author = "Sharma, Vasu  and
      Kulkarni, Nitish  and
      Pranavi, Srividya  and
      Bayomi, Gabriel  and
      Nyberg, Eric  and
      Mitamura, Teruko",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2312/",
    doi = "10.18653/v1/W18-2312",
    pages = "109--117"
}
@inproceedings{das-etal-2018-phrase2vecglm,
    title = "{P}hrase2{V}ec{GLM}: Neural generalized language model{--}based semantic tagging for complex query reformulation in medical {IR}",
    author = "Das, Manirupa  and
      Fosler-Lussier, Eric  and
      Lin, Simon  and
      Moosavinasab, Soheil  and
      Chen, David  and
      Rust, Steve  and
      Huang, Yungui  and
      Ramnath, Rajiv",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2313/",
    doi = "10.18653/v1/W18-2313",
    pages = "118--128"
}
@inproceedings{nguyen-verspoor-2018-convolutional,
    title = "Convolutional neural networks for chemical-disease relation extraction are improved with character-based word embeddings",
    author = "Nguyen, Dat Quoc  and
      Verspoor, Karin",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2314/",
    doi = "10.18653/v1/W18-2314",
    pages = "129--136"
}
@inproceedings{liu-etal-2018-domain,
    title = "Domain Adaptation for Disease Phrase Matching with Adversarial Networks",
    author = "Liu, Miaofeng  and
      Han, Jialong  and
      Zhang, Haisong  and
      Song, Yan",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2315/",
    doi = "10.18653/v1/W18-2315",
    pages = "137--141"
}
@inproceedings{salimi-rozovskaya-2018-predicting,
    title = "Predicting Discharge Disposition Using Patient Complaint Notes in Electronic Medical Records",
    author = "Salimi, Mohamad  and
      Rozovskaya, Alla",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2316/",
    doi = "10.18653/v1/W18-2316",
    pages = "142--146"
}
@inproceedings{wang-meng-2018-bacteria,
    title = "Bacteria and Biotope Entity Recognition Using A Dictionary-Enhanced Neural Network Model",
    author = "Wang, Qiuyue  and
      Meng, Xiaofeng",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2317/",
    doi = "10.18653/v1/W18-2317",
    pages = "147--150"
}
@inproceedings{yeganova-etal-2018-singlecite,
    title = "{S}ingle{C}ite: Towards an improved Single Citation Search in {P}ub{M}ed",
    author = "Yeganova, Lana  and
      Comeau, Donald C  and
      Kim, Won  and
      Wilbur, W John  and
      Lu, Zhiyong",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2318/",
    doi = "10.18653/v1/W18-2318",
    pages = "151--155"
}
@inproceedings{zhao-etal-2018-framework,
    title = "A Framework for Developing and Evaluating Word Embeddings of Drug-named Entity",
    author = "Zhao, Mengnan  and
      Masino, Aaron J.  and
      Yang, Christopher C.",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2319/",
    doi = "10.18653/v1/W18-2319",
    pages = "156--160"
}
@inproceedings{kim-etal-2018-mesh,
    title = "{M}e{SH}-based dataset for measuring the relevance of text retrieval",
    author = "Kim, Won Gyu  and
      Yeganova, Lana  and
      Comeau, Donald  and
      Wilbur, W John  and
      Lu, Zhiyong",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2320/",
    doi = "10.18653/v1/W18-2320",
    pages = "161--165"
}
@inproceedings{zhou-etal-2018-crf,
    title = "{CRF}-{LSTM} Text Mining Method Unveiling the Pharmacological Mechanism of Off-target Side Effect of Anti-Multiple Myeloma Drugs",
    author = "Zhou, Kaiyin  and
      Zhang, Sheng  and
      Meng, Xiangyu  and
      Luo, Qi  and
      Wang, Yuxing  and
      Ding, Ke  and
      Feng, Yukun  and
      Chen, Mo  and
      Cohen, Kevin  and
      Xia, Jingbo",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2321/",
    doi = "10.18653/v1/W18-2321",
    pages = "166--171"
}
@inproceedings{nagata-etal-2018-prediction,
    title = "Prediction Models for Risk of Type-2 Diabetes Using Health Claims",
    author = "Nagata, Masatoshi  and
      Takai, Kohichi  and
      Yasuda, Keiji  and
      Heracleous, Panikos  and
      Yoneyama, Akio",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2322/",
    doi = "10.18653/v1/W18-2322",
    pages = "172--176"
}
@inproceedings{wang-etal-2018-learning-better,
    title = "On Learning Better Embeddings from {C}hinese Clinical Records: Study on Combining In-Domain and Out-Domain Data",
    author = "Wang, Yaqiang  and
      Chen, Yunhui  and
      Shu, Hongping  and
      Jiang, Yongguang",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2323/",
    doi = "10.18653/v1/W18-2323",
    pages = "177--182"
}
@inproceedings{trieu-etal-2018-investigating,
    title = "Investigating Domain-Specific Information for Neural Coreference Resolution on Biomedical Texts",
    author = "Trieu, Hai-Long  and
      Nguyen, Nhung T. H.  and
      Miwa, Makoto  and
      Ananiadou, Sophia",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2324/",
    doi = "10.18653/v1/W18-2324",
    pages = "183--188"
}
@inproceedings{rosenthal-faulkner-2018-toward,
    title = "Toward Cross-Domain Engagement Analysis in Medical Notes",
    author = "Rosenthal, Sara  and
      Faulkner, Adam",
    editor = "Demner-Fushman, Dina  and
      Cohen, Kevin Bretonnel  and
      Ananiadou, Sophia  and
      Tsujii, Junichi",
    booktitle = "Proceedings of the {B}io{NLP} 2018 workshop",
    month = jul,
    year = "2018",
    address = "Melbourne, Australia",
    publisher = "Association for Computational Linguistics",
    url = "https://preview.aclanthology.org/volume-fixes/W18-2325/",
    doi = "10.18653/v1/W18-2325",
    pages = "189--193"
}