Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing

Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor 2020-07 Association for Computational Linguistics Online text conference publication bionlp-2020-sigbiomed https://aclanthology.org/2020.bionlp-1.0/ Quantifying 60 Years of Gender Bias in Biomedical Research with Word Embeddings Anthony Rios author Reenam Joshi author Hejin Shin author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication rios-etal-2020-quantifying 10.18653/v1/2020.bionlp-1.1 https://aclanthology.org/2020.bionlp-1.1/ 2020-07 1 13 Sequence-to-Set Semantic Tagging for Complex Query Reformulation and Automated Text Categorization in Biomedical IR using Self-Attention Manirupa Das author Juanxi Li author Eric Fosler-Lussier author Simon Lin author Steve Rust author Yungui Huang author Rajiv Ramnath author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication das-etal-2020-sequence 10.18653/v1/2020.bionlp-1.2 https://aclanthology.org/2020.bionlp-1.2/ 2020-07 14 27 Interactive Extractive Search over Biomedical Corpora Hillel Taub Tabib author Micah Shlain author Shoval Sadde author Dan Lahav author Matan Eyal author Yaara Cohen author Yoav Goldberg author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication taub-tabib-etal-2020-interactive 10.18653/v1/2020.bionlp-1.3 https://aclanthology.org/2020.bionlp-1.3/ 2020-07 28 37 Improving Biomedical Analogical Retrieval with Embedding of Structural Dependencies Amandalynne Paullada author Bethany Percha author Trevor Cohen author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication paullada-etal-2020-improving 10.18653/v1/2020.bionlp-1.4 https://aclanthology.org/2020.bionlp-1.4/ 2020-07 38 48 DeSpin: a prototype system for detecting spin in biomedical publications Anna Koroleva author Sanjay Kamath author Patrick Bossuyt author Patrick Paroubek author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication koroleva-etal-2020-despin 10.18653/v1/2020.bionlp-1.5 https://aclanthology.org/2020.bionlp-1.5/ 2020-07 49 59 Towards Visual Dialog for Radiology Olga Kovaleva author Chaitanya Shivade author Satyananda Kashyap author Karina Kanjaria author Joy Wu author Deddeh Ballah author Adam Coy author Alexandros Karargyris author Yufan Guo author David Beymer Beymer author Anna Rumshisky author Vandana Mukherjee Mukherjee author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication kovaleva-etal-2020-towards 10.18653/v1/2020.bionlp-1.6 https://aclanthology.org/2020.bionlp-1.6/ 2020-07 60 69 A BERT-based One-Pass Multi-Task Model for Clinical Temporal Relation Extraction Chen Lin author Timothy Miller author Dmitriy Dligach author Farig Sadeque author Steven Bethard author Guergana Savova author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication lin-etal-2020-bert 10.18653/v1/2020.bionlp-1.7 https://aclanthology.org/2020.bionlp-1.7/ 2020-07 70 75 Experimental Evaluation and Development of a Silver-Standard for the MIMIC-III Clinical Coding Dataset Thomas Searle author Zina Ibrahim author Richard Dobson author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication searle-etal-2020-experimental 10.18653/v1/2020.bionlp-1.8 https://aclanthology.org/2020.bionlp-1.8/ 2020-07 76 85 Comparative Analysis of Text Classification Approaches in Electronic Health Records Aurelie Mascio author Zeljko Kraljevic author Daniel Bean author Richard Dobson author Robert Stewart author Rebecca Bendayan author Angus Roberts author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication mascio-etal-2020-comparative 10.18653/v1/2020.bionlp-1.9 https://aclanthology.org/2020.bionlp-1.9/ 2020-07 86 94 Noise Pollution in Hospital Readmission Prediction: Long Document Classification with Reinforcement Learning Liyan Xu author Julien Hogan author Rachel E Patzer author Jinho D Choi author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication xu-etal-2020-noise 10.18653/v1/2020.bionlp-1.10 https://aclanthology.org/2020.bionlp-1.10/ 2020-07 95 104 Evaluating the Utility of Model Configurations and Data Augmentation on Clinical Semantic Textual Similarity Yuxia Wang author Fei Liu author Karin Verspoor author Timothy Baldwin author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication wang-etal-2020-evaluating 10.18653/v1/2020.bionlp-1.11 https://aclanthology.org/2020.bionlp-1.11/ 2020-07 105 111 Entity-Enriched Neural Models for Clinical Question Answering Bhanu Pratap Singh Rawat author Wei-Hung Weng author So Yeon Min author Preethi Raghavan author Peter Szolovits author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication rawat-etal-2020-entity 10.18653/v1/2020.bionlp-1.12 https://aclanthology.org/2020.bionlp-1.12/ 2020-07 112 122 Evidence Inference 2.0: More Data, Better Models Jay DeYoung author Eric Lehman author Benjamin Nye author Iain Marshall author Byron C Wallace author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication deyoung-etal-2020-evidence 10.18653/v1/2020.bionlp-1.13 https://aclanthology.org/2020.bionlp-1.13/ 2020-07 123 132 Personalized Early Stage Alzheimer’s Disease Detection: A Case Study of President Reagan’s Speeches Ning Wang author Fan Luo author Vishal Peddagangireddy author Koduvayur Subbalakshmi author Rajarathnam Chandramouli author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication wang-etal-2020-personalized 10.18653/v1/2020.bionlp-1.14 https://aclanthology.org/2020.bionlp-1.14/ 2020-07 133 139 BioMRC: A Dataset for Biomedical Machine Reading Comprehension Dimitris Pappas author Petros Stavropoulos author Ion Androutsopoulos author Ryan McDonald author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication pappas-etal-2020-biomrc 10.18653/v1/2020.bionlp-1.15 https://aclanthology.org/2020.bionlp-1.15/ 2020-07 140 149 Neural Transduction of Letter Position Dyslexia using an Anagram Matrix Representation Avi Bleiweiss author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication bleiweiss-2020-neural 10.18653/v1/2020.bionlp-1.16 https://aclanthology.org/2020.bionlp-1.16/ 2020-07 150 155 Domain Adaptation and Instance Selection for Disease Syndrome Classification over Veterinary Clinical Notes Brian Hur author Timothy Baldwin author Karin Verspoor author Laura Hardefeldt author James Gilkerson author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication hur-etal-2020-domain 10.18653/v1/2020.bionlp-1.17 https://aclanthology.org/2020.bionlp-1.17/ 2020-07 156 166 Benchmark and Best Practices for Biomedical Knowledge Graph Embeddings David Chang author Ivana Balažević author Carl Allen author Daniel Chawla author Cynthia Brandt author Andrew Taylor author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication chang-etal-2020-benchmark 10.18653/v1/2020.bionlp-1.18 https://aclanthology.org/2020.bionlp-1.18/ 2020-07 167 176 Extensive Error Analysis and a Learning-Based Evaluation of Medical Entity Recognition Systems to Approximate User Experience Isar Nejadgholi author Kathleen C Fraser author Berry de Bruijn author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication nejadgholi-etal-2020-extensive 10.18653/v1/2020.bionlp-1.19 https://aclanthology.org/2020.bionlp-1.19/ 2020-07 177 186 A Data-driven Approach for Noise Reduction in Distantly Supervised Biomedical Relation Extraction Saadullah Amin author Katherine Ann Dunfield author Anna Vechkaeva author Guenter Neumann author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication amin-etal-2020-data 10.18653/v1/2020.bionlp-1.20 https://aclanthology.org/2020.bionlp-1.20/ 2020-07 187 194 Global Locality in Biomedical Relation and Event Extraction Elaheh ShafieiBavani author Antonio Jimeno Yepes author Xu Zhong author David Martinez Iraola author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication shafieibavani-etal-2020-global 10.18653/v1/2020.bionlp-1.21 https://aclanthology.org/2020.bionlp-1.21/ 2020-07 195 204 An Empirical Study of Multi-Task Learning on BERT for Biomedical Text Mining Yifan Peng author Qingyu Chen author Zhiyong Lu author 2020-07 text Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing Dina Demner-Fushman editor Kevin Bretonnel Cohen editor Sophia Ananiadou editor Junichi Tsujii editor Association for Computational Linguistics Online conference publication peng-etal-2020-empirical 10.18653/v1/2020.bionlp-1.22 https://aclanthology.org/2020.bionlp-1.22/ 2020-07 205 214