Ontologies, Classifications, and Coding

Extracting Drug Names and Associated Attributes From Discharge Summaries: Text Mining Study

Ghada Alfattni, Maksim Belousov, Niels Peek, Goran Nenadic

JMIR Med Inform 2021 (May 05); 9(5):e24678

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An Automatic Ontology-Based Approach to Support Logical Representation of Observable and Measurable Data for Healthy Lifestyle Management: Proof-of-Concept Study

Ayan Chatterjee, Andreas Prinz, Martin Gerdes, Santiago Martinez

J Med Internet Res 2021 (Apr 09); 23(4):e24656

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A Framework (SOCRATex) for Hierarchical Annotation of Unstructured Electronic Health Records and Integration Into a Standardized Medical Database: Development and Usability Study

Jimyung Park, Seng Chan You, Eugene Jeong, Chunhua Weng, Dongsu Park, Jin Roh, Dong Yun Lee, Jae Youn Cheong, Jin Wook Choi, Mira Kang, Rae Woong Park

JMIR Med Inform 2021 (Mar 30); 9(3):e23983

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Natural Language Processing of Clinical Notes to Identify Mental Illness and Substance Use Among People Living with HIV: Retrospective Cohort Study

Jessica P Ridgway, Arno Uvin, Jessica Schmitt, Tomasz Oliwa, Ellen Almirol, Samantha Devlin, John Schneider

JMIR Med Inform 2021 (Mar 10); 9(3):e23456

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Contribution of Free-Text Comments to the Burden of Documentation: Assessment and Analysis of Vital Sign Comments in Flowsheets

Zhijun Yin, Yongtai Liu, Allison B McCoy, Bradley A Malin, Patricia R Sengstack

J Med Internet Res 2021 (Mar 04); 23(3):e22806

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Lexicon Development for COVID-19-related Concepts Using Open-source Word Embedding Sources: An Intrinsic and Extrinsic Evaluation

Soham Parikh, Anahita Davoudi, Shun Yu, Carolina Giraldo, Emily Schriver, Danielle Mowery

JMIR Med Inform 2021 (Feb 22); 9(2):e21679

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Similarity-Based Unsupervised Spelling Correction Using BioWordVec: Development and Usability Study of Bacterial Culture and Antimicrobial Susceptibility Reports

Taehyeong Kim, Sung Won Han, Minji Kang, Se Ha Lee, Jong-Ho Kim, Hyung Joon Joo, Jang Wook Sohn

JMIR Med Inform 2021 (Feb 22); 9(2):e25530

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Disease Concept-Embedding Based on the Self-Supervised Method for Medical Information Extraction from Electronic Health Records and Disease Retrieval: Algorithm Development and Validation Study

Yen-Pin Chen, Yuan-Hsun Lo, Feipei Lai, Chien-Hua Huang

J Med Internet Res 2021 (Jan 27); 23(1):e25113

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Use of the Systematized Nomenclature of Medicine Clinical Terms (SNOMED CT) for Processing Free Text in Health Care: Systematic Scoping Review

Christophe Gaudet-Blavignac, Vasiliki Foufi, Mina Bjelogrlic, Christian Lovis

J Med Internet Res 2021 (Jan 26); 23(1):e24594

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Clinical Term Normalization Using Learned Edit Patterns and Subconcept Matching: System Development and Evaluation

Rohit J Kate

JMIR Med Inform 2021 (Jan 14); 9(1):e23104

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Detecting Miscoded Diabetes Diagnosis Codes in Electronic Health Records for Quality Improvement: Temporal Deep Learning Approach

Sina Rashidian, Kayley Abell-Hart, Janos Hajagos, Richard Moffitt, Veena Lingam, Victor Garcia, Chao-Wei Tsai, Fusheng Wang, Xinyu Dong, Siao Sun, Jianyuan Deng, Rajarsi Gupta, Joshua Miller, Joel Saltz, Mary Saltz

JMIR Med Inform 2020 (Dec 17); 8(12):e22649

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Transformation of Pathology Reports Into the Common Data Model With Oncology Module: Use Case for Colon Cancer

Borim Ryu, Eunsil Yoon, Seok Kim, Sejoon Lee, Hyunyoung Baek, Soyoung Yi, Hee Young Na, Ji-Won Kim, Rong-Min Baek, Hee Hwang, Sooyoung Yoo

J Med Internet Res 2020 (Dec 09); 22(12):e18526

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Using Social Media Data to Understand Consumers' Information Needs and Emotions Regarding Cancer: Ontology-Based Data Analysis Study

Jooyun Lee, Hyeoun-Ae Park, Seul Ki Park, Tae-Min Song

J Med Internet Res 2020 (Dec 07); 22(12):e18767

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Automatic Structuring of Ontology Terms Based on Lexical Granularity and Machine Learning: Algorithm Development and Validation

Lingyun Luo, Jingtao Feng, Huijun Yu, Jiaolong Wang

JMIR Med Inform 2020 (Nov 25); 8(11):e22333

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Visualization Environment for Federated Knowledge Graphs: Development of an Interactive Biomedical Query Language and Web Application Interface

Steven Cox, Stanley C Ahalt, James Balhoff, Chris Bizon, Karamarie Fecho, Yaphet Kebede, Kenneth Morton, Alexander Tropsha, Patrick Wang, Hao Xu

JMIR Med Inform 2020 (Nov 23); 8(11):e17964

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COVID-19 Surveillance in a Primary Care Sentinel Network: In-Pandemic Development of an Application Ontology

Simon de Lusignan, Harshana Liyanage, Dylan McGagh, Bhautesh Dinesh Jani, Jorgen Bauwens, Rachel Byford, Dai Evans, Tom Fahey, Trisha Greenhalgh, Nicholas Jones, Frances S Mair, Cecilia Okusi, Vaishnavi Parimalanathan, Jill P Pell, Julian Sherlock, Oscar Tamburis, Manasa Tripathy, Filipa Ferreira, John Williams, F D Richard Hobbs

JMIR Public Health Surveill 2020 (Nov 17); 6(4):e21434

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Characterizing Chronic Pain Episodes in Clinical Text at Two Health Care Systems: Comprehensive Annotation and Corpus Analysis

Luke A Carlson, Molly M Jeffery, Sunyang Fu, Huan He, Rozalina G McCoy, Yanshan Wang, William Michael Hooten, Jennifer St Sauver, Hongfang Liu, Jungwei Fan

JMIR Med Inform 2020 (Nov 16); 8(11):e18659

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An Environmental Scan of Sex and Gender in Electronic Health Records: Analysis of Public Information Sources

Francis Lau, Marcy Antonio, Kelly Davison, Roz Queen, Katie Bryski

J Med Internet Res 2020 (Nov 11); 22(11):e20050

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Building a Pharmacogenomics Knowledge Model Toward Precision Medicine: Case Study in Melanoma

Hongyu Kang, Jiao Li, Meng Wu, Liu Shen, Li Hou

JMIR Med Inform 2020 (Oct 21); 8(10):e20291

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Coding Systems for Clinical Decision Support: Theoretical and Real-World Comparative Analysis

Nicolas Delvaux, Bert Vaes, Bert Aertgeerts, Stijn Van de Velde, Robert Vander Stichele, Peter Nyberg, Mieke Vermandere

JMIR Form Res 2020 (Oct 21); 4(10):e16094

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