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BioNLP Shared Task Workshop 2019: all accepted papers

59 papers · the most cited first · ← BioNLP Shared Task Workshop 2019

  1. Transfer Learning in Biomedical Natural Language Processing: An Evaluation of BERT and ELMo on Ten Benchmarking DatasetsYifan Peng, Shankai Yan, Zhiyong Lu868 citations · our summary
  2. ScispaCy: Fast and Robust Models for Biomedical Natural Language ProcessingMark Neumann, Daniel King, Iz Beltagy et al.488 citations · our summary
  3. Overview of the MEDIQA 2019 Shared Task on Textual Inference, Question Entailment and Question AnsweringAsma Ben Abacha, Chaitanya Shivade, Dina Demner-Fushman116 citations · our summary
  4. Two-stage Federated Phenotyping and Patient Representation LearningDianbo Liu, Dmitriy Dligach, Timothy Miller98 citations
  5. Improving Chemical Named Entity Recognition in Patents with Contextualized Word EmbeddingsZenan Zhai, Dat Quoc Nguyen, Saber Akhondi et al.40 citations
  6. Deep Contextualized Biomedical Abbreviation ExpansionQiao Jin, Jinling Liu, Xinghua Lu33 citations
  7. ChiMed: A Chinese Medical Corpus for Question AnsweringYuanhe Tian, Weicheng Ma, Fei Xia et al.31 citations
  8. Improving classification of Adverse Drug Reactions through Using Sentiment Analysis and Transfer LearningHassan Alhuzali, Sophia Ananiadou29 citations
  9. Transfer Learning for Causal Sentence DetectionManolis Kyriakakis, Ion Androutsopoulos, Artur Saudabayev et al.26 citations
  10. PANLP at MEDIQA 2019: Pre-trained Language Models, Transfer Learning and Knowledge DistillationWei Zhu, Xiaofeng Zhou, Keqiang Wang et al.25 citations
  11. NCUEE at MEDIQA 2019: Medical Text Inference Using Ensemble BERT-BiLSTM-Attention ModelLung-Hao Lee, Yi Lu, Po-Han Chen et al.23 citations
  12. Constructing large scale biomedical knowledge bases from scratch with rapid annotation of interpretable patternsJulien Fauqueur, Ashok Thillaisundaram, Theodosia Togia22 citations
  13. A Comparison of Word-based and Context-based Representations for Classification Problems in Health InformaticsAditya Joshi, Sarvnaz Karimi, Ross Sparks et al.20 citations
  14. Contributions to Clinical Named Entity Recognition in PortugueseFábio Lopes, César Teixeira, Hugo Gonçalo Oliveira20 citations
  15. A Paraphrase Generation System for EHR Question AnsweringSarvesh Soni, Kirk Roberts18 citations
  16. BioRelEx 1.0: Biological Relation Extraction BenchmarkHrant Khachatrian, Lilit Nersisyan, Karen Hambardzumyan et al.17 citations
  17. LasigeBioTM at MEDIQA 2019: Biomedical Question Answering using Bidirectional Transformers and Named Entity RecognitionAndre Lamurias, Francisco M Couto17 citations
  18. DoubleTransfer at MEDIQA 2019: Multi-Source Transfer Learning for Natural Language Understanding in the Medical DomainYichong Xu, Xiaodong Liu, Chunyuan Li et al.14 citations
  19. Embedding Biomedical Ontologies by Jointly Encoding Network Structure and Textual Node DescriptorsSotiris Kotitsas, Dimitris Pappas, Ion Androutsopoulos et al.14 citations
  20. Pentagon at MEDIQA 2019: Multi-task Learning for Filtering and Re-ranking Answers using Language Inference and Question EntailmentHemant Pugaliya, Karan Saxena, Shefali Garg et al.12 citations
  21. ARS_NITK at MEDIQA 2019:Analysing Various Methods for Natural Language Inference, Recognising Question Entailment and Medical Question Answering SystemAnumeha Agrawal, Rosa Anil George, Selvan Suntiha Ravi et al.11 citations
  22. MoNERo: a Biomedical Gold Standard Corpus for the Romanian LanguageMaria Mitrofan, Verginica Barbu Mititelu, Grigorina Mitrofan11 citations
  23. WTMED at MEDIQA 2019: A Hybrid Approach to Biomedical Natural Language InferenceZhaofeng Wu, Yan Song, Sicong Huang et al.11 citations
  24. Can Character Embeddings Improve Cause-of-Death Classification for Verbal Autopsy Narratives?Zhaodong Yan, Serena Jeblee, Graeme Hirst10 citations
  25. Classifying the reported ability in clinical mobility descriptionsDenis Newman-Griffis, Ayah Zirikly, Guy Divita et al.10 citations
  26. Clinical Concept Extraction for Document-Level CodingSarah Wiegreffe, Edward Choi, Sherry Yan et al.10 citations
  27. A distantly supervised dataset for automated data extraction from diagnostic studiesChristopher Norman, Mariska Leeflang, René Spijker et al.9 citations
  28. First Steps towards Building a Medical Lexicon for Spanish with Linguistic and Semantic InformationLeonardo Campillos-Llanos9 citations
  29. Is artificial data useful for biomedical Natural Language Processing algorithms?Zixu Wang, Julia Ive, Sumithra Velupillai et al.9 citations
  30. Combining Structured and Free-text Electronic Medical Record Data for Real-time Clinical Decision SupportEmilia Apostolova, Tony Wang, Tim Tschampel et al.7 citations
  31. DUT-NLP at MEDIQA 2019: An Adversarial Multi-Task Network to Jointly Model Recognizing Question Entailment and Question AnsweringHuiwei Zhou, Xuefei Li, Weihong Yao et al.7 citations
  32. Enhancing biomedical word embeddings by retrofitting to verb clustersBilly Chiu, Simon Baker, Martha Palmer et al.7 citations
  33. IIT-KGP at MEDIQA 2019: Recognizing Question Entailment using Sci-BERT stacked with a Gradient Boosting ClassifierPrakhar Sharma, Sumegh Roychowdhury7 citations
  34. KU_ai at MEDIQA 2019: Domain-specific Pre-training and Transfer Learning for Medical NLICemil Cengiz, Ulaş Sert, Deniz Yuret7 citations
  35. Saama Research at MEDIQA 2019: Pre-trained BioBERT with Attention Visualisation for Medical Natural Language InferenceKamal raj Kanakarajan, Suriyadeepan Ramamoorthy, Vaidheeswaran Archana et al.7 citations
  36. Sieg at MEDIQA 2019: Multi-task Neural Ensemble for Biomedical Inference and EntailmentSai Abishek Bhaskar, Rashi Rungta, James Route et al.7 citations
  37. Simplification-induced transformations: typology and some characteristicsAnaïs Koptient, Rémi Cardon, Natalia Grabar7 citations
  38. UU_TAILS at MEDIQA 2019: Learning Textual Entailment in the Medical DomainNoha Tawfik, Marco Spruit7 citations
  39. Enhancing PIO Element Detection in Medical Text Using Contextualized EmbeddingHichem Mezaoui, Isuru Gunasekara, Aleksandr Gontcharov6 citations
  40. Extracting relations between outcomes and significance levels in Randomized Controlled Trials (RCTs) publicationsAnna Koroleva, Patrick Paroubek5 citations
  41. MSIT_SRIB at MEDIQA 2019: Knowledge Directed Multi-task Framework for Natural Language Inference in Clinical Domain.Sahil Chopra, Ankita Gupta, Anupama Kaushik5 citations
  42. RNN Embeddings for Identifying Difficult to Understand Medical WordsHanna Pylieva, Artem Chernodub, Natalia Grabar et al.5 citations
  43. ANU-CSIRO at MEDIQA 2019: Question Answering Using Deep Contextual KnowledgeVincent Nguyen, Sarvnaz Karimi, Zhenchang Xing4 citations
  44. Analysing Representations of Memory Impairment in a Clinical Notes Classification ModelMark Ormerod, Jesús Martínez-del-Rincón, Neil Robertson et al.4 citations
  45. Clinical Case Reports for NLPCyril Grouin, Natalia Grabar, Vincent Claveau et al.4 citations
  46. DUT-BIM at MEDIQA 2019: Utilizing Transformer Network and Medical Domain-Specific Contextualized Representations for Question AnsweringHuiwei Zhou, Bizun Lei, Zhe Liu et al.4 citations
  47. UW-BHI at MEDIQA 2019: An Analysis of Representation Methods for Medical Natural Language InferenceWilliam Kearns, Wilson Lau, Jason Thomas4 citations
  48. Domain Adaptation of SRL Systems for Biological ProcessesDheeraj Rajagopal, Nidhi Vyas, Aditya Siddhant et al.3 citations
  49. Dr.Quad at MEDIQA 2019: Towards Textual Inference and Question Entailment using contextualized representationsVinayshekhar Bannihatti Kumar, Ashwin Srinivasan, Aditi Chaudhary et al.3 citations
  50. IITP at MEDIQA 2019: Systems Report for Natural Language Inference, Question Entailment and Question AnsweringDibyanayan Bandyopadhyay, Baban Gain, Tanik Saikh et al.3 citations
  51. Learning from the Experience of Doctors: Automated Diagnosis of Appendicitis Based on Clinical NotesSteven Kester Yuwono, Hwee Tou Ng, Kee Yuan Ngiam3 citations
  52. Leveraging Sublanguage Features for the Semantic Categorization of Clinical TermsLeonie Grön, Ann Bertels, Kris Heylen3 citations
  53. Query selection methods for automated corpora construction with a use case in food-drug interactionsGeorgeta Bordea, Tsanta Randriatsitohaina, Fleur Mougin et al.3 citations
  54. Annotating Temporal Information in Clinical Notes for Timeline Reconstruction: Towards the Definition of Calendar ExpressionsNatalia Viani, Hegler Tissot, Ariane Bernardino et al.2 citations
  55. Exploring Diachronic Changes of Biomedical Knowledge using Distributed Concept RepresentationsGaurav Vashisth, Jan-Niklas Voigt-Antons, Michael Mikhailov et al.2 citations
  56. Extraction of Lactation Frames from Drug Labels and LactMedHeath Goodrum, Meghana Gudala, Ankita Misra et al.2 citations
  57. Surf at MEDIQA 2019: Improving Performance of Natural Language Inference in the Clinical Domain by Adopting Pre-trained Language ModelJiin Nam, Seunghyun Yoon, Kyomin Jung2 citations
  58. Incorporating Figure Captions and Descriptive Text in MeSH Term IndexingXindi Wang, Robert E. Mercer1 citation
  59. REflex: Flexible Framework for Relation Extraction in Multiple DomainsGeeticka Chauhan, Matthew B.A. McDermott, Peter Szolovits

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