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BioCreative/OHNLP Challenge 2018

Published: 15 August 2018 Publication History

Abstract

The application of Natural Language Processing (NLP) methods and resources to clinical and biomedical text has received growing attention over the past years, but progress has been limited by difficulties to access shared tools and resources, partially caused by patient privacy and data confidentiality constraints. Efforts to increase sharing and interoperability of the few existing resources are needed to facilitate the progress observed in the general NLP domain. Leveraging our research in corpus analysis and de-identification research, we have created multiple synthetic data sets for a couple of NLP tasks based on real clinical sentences. We are organizing a challenge workshop to promote community efforts towards the advancement in clinical NLP. The challenge workshop will have two tasks: 1) Family History Information Extraction; and 2) Clinical Semantic Textual Similarity.

Cited By

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  • (2025)PhenoFlow: A Human-LLM Driven Visual Analytics System for Exploring Large and Complex Stroke DatasetsIEEE Transactions on Visualization and Computer Graphics10.1109/TVCG.2024.345621531:1(470-480)Online publication date: Jan-2025
  • (2023)Identifying the Question Similarity of Regulatory Documents in the Pharmaceutical Industry by Using the Recognizing Question Entailment System: Evaluation StudyJMIR AI10.2196/434832(e43483)Online publication date: 26-Sep-2023
  • (2023)Clinical Natural Language Processing in Secondary Use of EHR for ResearchClinical Research Informatics10.1007/978-3-031-27173-1_21(433-451)Online publication date: 15-Jun-2023
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cover image ACM Conferences
BCB '18: Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics
August 2018
727 pages
ISBN:9781450357944
DOI:10.1145/3233547
Permission to make digital or hard copies of part or all of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for third-party components of this work must be honored. For all other uses, contact the Owner/Author.

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Association for Computing Machinery

New York, NY, United States

Publication History

Published: 15 August 2018

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Author Tags

  1. information extraction
  2. natural language processing
  3. semantic textual similarity

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BCB '18
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BCB '18 Paper Acceptance Rate 46 of 148 submissions, 31%;
Overall Acceptance Rate 254 of 885 submissions, 29%

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Cited By

View all
  • (2025)PhenoFlow: A Human-LLM Driven Visual Analytics System for Exploring Large and Complex Stroke DatasetsIEEE Transactions on Visualization and Computer Graphics10.1109/TVCG.2024.345621531:1(470-480)Online publication date: Jan-2025
  • (2023)Identifying the Question Similarity of Regulatory Documents in the Pharmaceutical Industry by Using the Recognizing Question Entailment System: Evaluation StudyJMIR AI10.2196/434832(e43483)Online publication date: 26-Sep-2023
  • (2023)Clinical Natural Language Processing in Secondary Use of EHR for ResearchClinical Research Informatics10.1007/978-3-031-27173-1_21(433-451)Online publication date: 15-Jun-2023
  • (2023)Machine Learning Based Finding of Similar Sentences from French Clinical NotesWeb Information Systems and Technologies10.1007/978-3-031-24197-0_2(26-42)Online publication date: 18-Jan-2023
  • (2022)A large language model for electronic health recordsnpj Digital Medicine10.1038/s41746-022-00742-25:1Online publication date: 26-Dec-2022
  • (2021)Predicting Semantic Similarity Between Clinical Sentence Pairs Using Transformer Models: Evaluation and Representational AnalysisJMIR Medical Informatics10.2196/230999:5(e23099)Online publication date: 26-May-2021
  • (2021)Estimating redundancy in clinical textJournal of Biomedical Informatics10.1016/j.jbi.2021.103938124(103938)Online publication date: Dec-2021
  • (2021)FoodViz: Visualization of Food Entities Linked Across Different StandardsMachine Learning, Optimization, and Data Science10.1007/978-3-030-64580-9_4(28-38)Online publication date: 7-Jan-2021
  • (2020)Family History Extraction from Electronic Health Records (Preprint)JMIR Medical Informatics10.2196/24020Online publication date: 31-Aug-2020
  • (2020)Overview of the 2019 n2c2/OHNLP Track on Clinical Semantic Textual Similarity (Preprint)JMIR Medical Informatics10.2196/23375Online publication date: 10-Aug-2020
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