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2020 – today
- 2024
[j19]Satya S. Sahoo
, Joseph M. Plasek, Hua Xu, Özlem Uzuner, Trevor Cohen, Meliha Yetisgen, Hongfang Liu, Stéphane M. Meystre, Yanshan Wang:
Large language models for biomedicine: foundations, opportunities, challenges, and best practices. J. Am. Medical Informatics Assoc. 31(9): 2114-2124 (2024)- 2023
- [c61]Stéphane M. Meystre, Paul M. Heider:
High Accuracy Open-Source Clinical Data De-Identification: The CliniDeID Solution. MedInfo 2023: 1370-1371 - [c60]Stéphane M. Meystre, Ruud van Stiphout, Annelies Goris, Santiago Gaitan:
AI-Based Gut-Brain Axis Digital Twins. MIE 2023: 1007-1008 - 2022
- [j18]Emily R. Pfaff, Andrew T. Girvin, Davera Gabriel, Kristin Kostka, Michele Morris, Matvey B. Palchuk, Harold P. Lehmann, Benjamin R. C. Amor, Mark Bissell, Katie R. Bradwell, Sigfried Gold, Stephanie S. Hong, Johanna Loomba, Amin Manna, Julie A. McMurry, Emily Niehaus, Nabeel Qureshi, Anita Walden, Xiaohan Tanner Zhang, Richard L. Zhu, Richard A. Moffitt, Christopher G. Chute, William G. Adams, Shaymaa Al-Shukri, Alfred Anzalone, Ahmad Baghal, Tellen D. Bennett, Elmer V. Bernstam, Mark M. Bissell, Brian Bush, Thomas R. Campion Jr., Victor Castro, Jack Chang, Deepa D. Chaudhari, Wenjin Chen, San Chu, James J. Cimino, Keith A. Crandall, Mark Crooks, Sara J. Deakyne Davies, John Dipalazzo, David A. Dorr, Dan Eckrich, Sarah E. Eltinge, Daniel G. Fort, George Golovko, Snehil Gupta, Melissa A. Haendel, Janos G. Hajagos, David A. Hanauer, Brett M. Harnett, Ronald Horswell, Nancy Huang, Steven G. Johnson, Michael Kahn, Kamil Khanipov, Curtis Kieler, Katherine Ruiz De Luzuriaga, Sarah E. Maidlow, Ashley Martinez, Jomol Mathew, James C. McClay, Gabriel McMahan, Brian Melancon, Stéphane M. Meystre, Lucio Miele, Hiroki Morizono, Ray Pablo, Lav P. Patel, Jimmy Phuong, Daniel J. Popham, Claudia P. Pulgarin, Carlos Santos, Indra Neil Sarkar, Nancy Sazo, Soko Setoguchi, Selvin Soby, Sirisha Surampalli, Christine Suver, Uma Maheswara Reddy Vangala, Shyam Visweswaran, James von Oehsen, Kellie M. Walters, Laura K. Wiley, David A. Williams, Adrian H. Zai:
Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative. J. Am. Medical Informatics Assoc. 29(4): 609-618 (2022) - [c59]Paul M. Heider, Kexin Chen, Ronak Pipaliya, Stéphane M. Meystre:
Post-Hoc Ensemble Generation for Clinical NLP: A Study of Concept Recognition, Normalization, and Context Attributes. AMIA 2022 - 2021
- [j17]Stéphane M. Meystre, Paul M. Heider, Youngjun Kim, Matthew Davis, Jihad S. Obeid, James E. Madory, Alexander V. Alekseyenko:
Natural language processing enabling COVID-19 predictive analytics to support data-driven patient advising and pooled testing. J. Am. Medical Informatics Assoc. 29(1): 12-21 (2021) - [c58]Alexander V. Alekseyenko, Bashir Hamidi, Stéphane M. Meystre:
Colonizing Microbiome as a Determinant of COVID-19 Outcome: A Pilot Study. AMIA 2021 - [c57]Paul M. Heider, Stéphane M. Meystre:
Overview and Descriptive Analysis of a New Ontology for Normalizing Section Types in Unstructured Clinical Notes. AMIA 2021 - [c56]Paul M. Heider, Stéphane M. Meystre:
Evaluating the Downstream Performance Impact of Various Common Off-the-Shelf Clinical NLP Components. AMIA 2021 - [c55]Youngjun Kim, Paul M. Heider, Stéphane M. Meystre:
Clinical Concept Extraction Using Contextual String Embeddings. AMIA 2021 - [c54]Stéphane M. Meystre, Paul M. Heider, Jihad S. Obeid, Alexander V. Alekseyenko, James E. Madory:
Natural Language Processing and COVID-19 Predictive Analytics to Enable and Optimize SARS-CoV-2 Pooled Testing. AMIA 2021 - [c53]Paul M. Heider, Ronak M. Pipaliya, Stéphane M. Meystre:
A Natural Language Processing Tool Offering Data Extraction for COVID-19 Related Information (DECOVRI). MedInfo 2021: 1062-1063 - [c52]Ronak Pipaliya, Paul M. Heider, Stéphane M. Meystre:
Comparing Multiple Models for Section Header Classification with Feature Evaluation. MedInfo 2021: 1064-1065 - 2020
- [j16]Youngjun Kim, Stéphane M. Meystre:
Ensemble method-based extraction of medication and related information from clinical texts. J. Am. Medical Informatics Assoc. 27(1): 31-38 (2020) - [j15]Jihad S. Obeid, Matthew Davis, Matthew Turner, Stéphane M. Meystre, Paul M. Heider, Edward C. O'Bryan, Leslie A. Lenert:
An artificial intelligence approach to COVID-19 infection risk assessment in virtual visits: A case report. J. Am. Medical Informatics Assoc. 27(8): 1321-1325 (2020) - [j14]Dee W. Ford, Jillian B. Harvey, James T. McElligott, Kathryn King, Kit N. Simpson, Shawn Valenta, Emily H. Warr, Tasia Walsh, Ellen Debenham, Carla Teasdale, Stéphane M. Meystre, Jihad S. Obeid, Christopher Metts, Leslie A. Lenert:
Leveraging health system telehealth and informatics infrastructure to create a continuum of services for COVID-19 screening, testing, and treatment. J. Am. Medical Informatics Assoc. 27(12): 1871-1877 (2020) - [c51]Paul M. Heider, Youngjun Kim, Stéphane M. Meystre:
A Meta-Analysis of Medical Concept Normalization Using Hierarchical Ontological Relations and Semantic Types. AMIA 2020 - [c50]Youngjun Kim, Paul M. Heider, Stéphane M. Meystre:
Comparative Study of Various Approaches for Ensemble-based De-identification of Electronic Health Record Narratives. AMIA 2020 - [c49]Youngjun Kim, Stéphane M. Meystre:
Improving De-identification of Clinical Text with Contextualized Embeddings. AMIA 2020 - [c48]Stéphane M. Meystre, Jonathan C. Silverstein, Guergana Savova, Valentina Petkov, Bradley A. Malin:
De-Identification of Clinical Text: Stakeholders' Perspectives and Acceptance of Automatic De-Identification. AMIA 2020
2010 – 2019
- 2019
- [j13]Stéphane M. Meystre, Paul M. Heider, Youngjun Kim, Daniel B. Aruch, Carolyn D. Britten:
Automatic trial eligibility surveillance based on unstructured clinical data. Int. J. Medical Informatics 129: 13-19 (2019) - [c47]Youngjun Kim, Stéphane M. Meystre:
Cancer Type Classification by Jointly Using Words and Concepts from Electronic Health Record Text Notes. AMIA 2019 - [c46]Gary Underwood, Andrew Trice, Youngjun Kim, Jean-Karlo Accetta, Stéphane M. Meystre:
Text De-Identification Impact on Subsequent Machine Learning Applications. AMIA 2019 - [c45]Youngjun Kim, Stéphane M. Meystre:
A Study of Medical Problem Extraction for Better Disease Management. MedInfo 2019: 193-197 - [c44]Jihad S. Obeid, Paul M. Heider, Erin R. Weeda, Andrew J. Matuskowitz, Christine M. Carr, Kevin Gagnon, Tami L. Crawford, Stéphane M. Meystre:
Impact of De-Identification on Clinical Text Classification Using Traditional and Deep Learning Classifiers. MedInfo 2019: 283-287 - [c43]Paul M. Heider, Stéphane M. Meystre:
Patient-Pivoted Automated Trial Eligibility Pipeline: The First of Three Phases in a Modular Architecture. MedInfo 2019: 1476-1477 - 2018
- [c42]Youngjun Kim, Paul M. Heider, Stéphane M. Meystre:
Ensemble-based Methods to Improve De-identification of Electronic Health Record Narratives. AMIA 2018 - [c41]Stéphane M. Meystre, David S. Carrell, Lynette Hirschman, John S. Aberdeen, Paul Fearn, Valentina Petkov, Jonathan C. Silverstein:
Automatic Text De-Identification: How and When is it Acceptable? AMIA 2018 - [c40]Stéphane M. Meystre, Paul M. Heider, Youngjun Kim, Andrew Trice, Gary Underwood:
Clinical Text Automatic De-Identification to Support Large Scale Data Reuse and Sharing: Pilot Results. AMIA 2018 - 2017
- [j12]Stéphane M. Meystre, Youngjun Kim, Glenn T. Gobbel, Michael E. Matheny, Andrew Redd, Bruce E. Bray, Jennifer H. Garvin:
Congestive heart failure information extraction framework for automated treatment performance measures assessment. J. Am. Medical Informatics Assoc. 24(e1): e40-e46 (2017) - [j11]Youngjun Kim, Jennifer H. Garvin, Mary K. Goldstein, Tammy S. Hwang, Andrew Redd, Daniel Bolton, Paul Heidenreich, Stéphane M. Meystre:
Extraction of left ventricular ejection fraction information from various types of clinical reports. J. Biomed. Informatics 67: 42-48 (2017) - [c39]Stéphane M. Meystre, Kristina Doing-Harris:
Semi-automated Ontology Development and Management System Applied to Medically Unexplained Syndromes in the U.S. Veterans Population. AIME 2017: 345-350 - [c38]Youngjun Kim, Ellen Riloff, Stéphane M. Meystre:
Exploiting Unlabeled Texts with Clustering-based Instance Selection for Medical Relation Classification. AMIA 2017 - [c37]Vivienne J. Zhu, Tina Walker, Robert W. Warren, Peggy Jenny, Stéphane M. Meystre, Leslie A. Lenert:
Identifying Falls Risk Screenings Not Documented with Administrative Codes Using Natural Language Processing. AMIA 2017 - [c36]Stéphane M. Meystre, Youngjun Kim, Glenn T. Gobbel, Michael E. Matheny, Andrew Redd, Bruce E. Bray, Jennifer H. Garvin:
Heart Failure Data for Patient Treatment Goals at the Point of Care: Automated Data Extraction and Consistent Reference Standard Importance. CRI 2017 - 2016
- [c35]Abdulrahman Khalifa, Stéphane M. Meystre:
Temporally Classifying Clinical Events Relative to Document Creation Time. AMIA 2016 - [c34]Stéphane M. Meystre, Hongfang Liu, Rong Xu, Sivaram Arabandi, Kavishwar B. Wagholikar, Jon D. Patrick, Guergana K. Savova, Chunhua Weng, Pierre Zweigenbaum, Dina Demner-Fushman, Özlem Uzuner, Hua Xu:
Natural Language Processing Working Group Pre-Symposium: Graduate Student Consortium and 'Hackathon'. AMIA 2016 - [c33]Stéphane M. Meystre, Jianyin Shao, Greg M. Jones:
Automated Dynamic Problem and Allergy Lists for Efficient Electronic Health Record Management. AMIA 2016 - [c32]Abdulrahman Al Abdulsalam, Sumithra Velupillai, Stéphane M. Meystre:
UtahBMI at SemEval-2016 Task 12: Extracting Temporal Information from Clinical Text. SemEval@NAACL-HLT 2016: 1256-1262 - 2015
- [j10]Kristina Doing-Harris, Yarden Livnat, Stéphane M. Meystre:
Automated concept and relationship extraction for the semi-automated ontology management (SEAM) system. J. Biomed. Semant. 6: 15 (2015) - [j9]Abdulrahman Khalifa, Stéphane M. Meystre:
Adapting existing natural language processing resources for cardiovascular risk factors identification in clinical notes. J. Biomed. Informatics 58: S128-S132 (2015) - [c31]Youngjun Kim, Jennifer H. Garvin, Julia Heavirland, Stéphane M. Meystre:
Improving Detection of Reasons Not to Take a Medication by Leveraging Medication Prescription Status. AMIA 2015 - [c30]Özlem Uzuner, John S. Aberdeen, Stéphane M. Meystre, Mehmet Kayaalp:
State of the Art of Clinical Narrative Report De-Identification and Its Future. AMIA 2015 - [c29]Youngjun Kim, Jennifer H. Garvin, Mary K. Goldstein, Stéphane M. Meystre:
Classification of Contextual Use of Left Ventricular Ejection Fraction Assessments. MedInfo 2015: 599-603 - [c28]Stéphane M. Meystre, Youngjun Kim, Julia Heavirland, Jenifer Williams, Bruce E. Bray, Jennifer H. Garvin:
Heart Failure Medications Detection and Prescription Status Classification in Clinical Narrative Documents. MedInfo 2015: 609-613 - [p1]Stéphane M. Meystre:
De-identification of Unstructured Clinical Data for Patient Privacy Protection. Medical Data Privacy Handbook 2015: 697-716 - 2014
- [j8]Stéphane M. Meystre, Óscar Ferrández, F. Jeffrey Friedlin, Brett R. South, Shuying Shen, Matthew H. Samore:
Text de-identification for privacy protection: A study of its impact on clinical text information content. J. Biomed. Informatics 50: 142-150 (2014) - [j7]Brett R. South, Danielle L. Mowery, Ying Suo, Jianwei Leng, Óscar Ferrández, Stéphane M. Meystre, Wendy W. Chapman:
Evaluating the effects of machine pre-annotation and an interactive annotation interface on manual de-identification of clinical text. J. Biomed. Informatics 50: 162-172 (2014) - [c27]Youngjun Kim, Jennifer H. Garvin, Julia Heavirland, Jenifer Williams, Stéphane M. Meystre:
Medication Prescription Status Classification in Clinical Narrative Documents. AMIA 2014 - [c26]Stéphane M. Meystre, Youngjun Kim, Andrew Redd, Jennifer H. Garvin:
Congestive Heart Failure Information Extraction Framework (CHIEF) Evaluation. AMIA 2014 - [c25]Andrew Redd, Youngjun Kim, Stéphane M. Meystre, Julia Heavirland, Allison Weaver, Jenifer Williams, Jennifer H. Garvin:
Effect of Pre-annotation on Annotation Time. AMIA 2014 - [c24]Brett R. South, Danielle L. Mowery, Chris Leng, Stéphane M. Meystre, Wendy W. Chapman:
A System Usability Study Assessing a Machine-Assisted Interactive Interface to Support Annotation of Protected Health Information in Clinical Texts. AMIA 2014 - [c23]Danielle L. Mowery, Mindy K. Ross, Sumithra Velupillai, Stéphane M. Meystre, Janyce Wiebe, Wendy W. Chapman:
Generating Patient Problem Lists from the ShARe Corpus using SNOMED CT/SNOMED CT CORE Problem List. BioNLP@ACL 2014: 54-58 - [c22]Stéphane M. Meystre, Shuying Shen, Deborah Hofmann, Adi V. Gundlapalli:
Can Physicians Recognize Their Own Patients in De-identified Notes? MIE 2014: 778-782 - 2013
- [j6]Óscar Ferrández, Brett R. South, Shuying Shen, F. Jeffrey Friedlin, Matthew H. Samore, Stéphane M. Meystre:
BoB, a best-of-breed automated text de-identification system for VHA clinical documents. J. Am. Medical Informatics Assoc. 20(1): 77-83 (2013) - [c21]Kristina Doing-Harris, Narong Boonsirisumpun, Kristin Potter, Yarden Livnat, Stéphane M. Meystre:
Automated Concept and Relationship Extraction for Ontology Development. AMIA 2013 - [c20]Stéphane M. Meystre, Kristina Doing-Harris, Narong Boonsirisumpun, Yarden Livnat, Kristin Potter:
Semi-automated Ontology Development System for Medically Unexplained Syndromes in the U.S. Veterans Population. AMIA 2013 - [c19]Stéphane M. Meystre, Ramkiran Gouripeddi, Abhisek Trivedi, Shawn Rangel:
Pediatric Acute Appendicitis Treatment Devices Automatic Extraction from Diagnostic Imaging Reports in a Multi-Institutional Clinical Repository. AMIA 2013 - [c18]Kristina Doing-Harris, Stéphane M. Meystre, Matthew H. Samore, Werner Ceusters:
Applying Ontological Realism to Medically Unexplained Syndromes. MedInfo 2013: 97-101 - [c17]Youngjun Kim, Jennifer H. Garvin, Julia Heavirland, Stéphane M. Meystre:
Improving Heart Failure Information Extraction by Domain Adaptation. MedInfo 2013: 185-189 - [c16]Stéphane M. Meystre, Hercules Dalianis, John S. Aberdeen, Bradley A. Malin:
Automatic Clinical Text De-Identification: Is It Worth It, and Could It Work for Me? MedInfo 2013: 1242 - 2012
- [j5]Stéphane M. Meystre, Sanghoon Lee, Chai Young Jung, Raphaël D. Chevrier:
Common data model for natural language processing based on two existing standard information models: CDA+GrAF. J. Biomed. Informatics 45(4): 703-710 (2012) - [c15]Kristina Doing-Harris, Stéphane M. Meystre, Matthew H. Samore, Werner Ceusters:
Domain and Application Ontologies for Medically Unexplained Syndromes. AMIA 2012 - [c14]Óscar Ferrández, Brett R. South, Shuying Shen, F. Jeffrey Friedlin, Matthew H. Samore, Stéphane M. Meystre:
Generalizability and Comparison of Automatic Clinical Text De-Identification Methods and Resources. AMIA 2012 - [c13]Jennifer H. Garvin, Julia Heavirland, Allison Weaver, Youngjun Kim, Bruce E. Bray, Daniel Bolton, Carol Hope, Andrew Redd, Sarah A. Maulden, Stéphane M. Meystre:
Determining Section Types to Capture Key Clinical Data for Automation of Quality Measurement for Inpatients with Chronic Heart Failure. AMIA 2012 - [c12]Neil Nokes, Stéphane M. Meystre, Brett R. South, Jeffrey Scehnet, Shuying Shen, Óscar Ferrández, F. Jeffrey Friedlin, Matthew Maw, Matthew H. Samore:
A Survey of VHA Privacy Officers for the External Use of Automatically De-Identified Clinical Documents. AMIA 2012 - [c11]Brett R. South, Danielle L. Mowery, Óscar Ferrández, Shuying Shen, Ying Suo, Mingyuan Zhang, Annie Chen, Liqin Wang, Stéphane M. Meystre, Wendy Webber Chapman:
On the Road Towards Developing a Publicly Available Corpus of De-identified Clinical Texts. AMIA 2012 - [c10]Óscar Ferrández, Brett R. South, Shuying Shen, Stéphane M. Meystre:
A Hybrid Stepwise Approach for De-identifying Person Names in Clinical Documents. BioNLP@HLT-NAACL 2012: 65-72 - 2011
- [c9]Youngjun Kim, Ellen Riloff, Stéphane M. Meystre:
Improving Classification of Medical Assertions in Clinical Notes. ACL (2) 2011: 311-316 - 2010
- [j4]Stéphane M. Meystre, Julien Thibault, Shuying Shen, John F. Hurdle, Brett R. South:
Textractor: a hybrid system for medications and reason for their prescription extraction from clinical text documents. J. Am. Medical Informatics Assoc. 17(5): 559-562 (2010) - [c8]Stéphane M. Meystre, Julien Thibault, Shuying Shen, John F. Hurdle, Brett R. South:
Automatically Detecting Medications and the Reason for their Prescription in Clinical Narrative Text Documents. MedInfo 2010: 944-948
2000 – 2009
- 2009
- [c7]Stéphane M. Meystre:
Detecting Intuitive Mentions of Diseases in Narrative Clinical Text. AIME 2009: 216-224 - [c6]Jeanmarie Mayer, Shuying Shen, Brett R. South, Stéphane M. Meystre, F. Jeff Friedlin, William R. Ray, Matthew H. Samore:
Inductive Creation of an Annotation Schema and a Reference Standard for De-identification of VA Electronic Clinical Notes. AMIA 2009 - [c5]Stéphane M. Meystre, Vikrant G. Deshmukh, Joyce A. Mitchell:
A Clinical Use Case to Evaluate the i2b2 Hive: Predicting Asthma Exacerbations. AMIA 2009 - 2008
- [j3]Stéphane M. Meystre, Peter J. Haug:
Randomized controlled trial of an automated problem list with improved sensitivity. Int. J. Medical Informatics 77(9): 602-612 (2008) - 2006
- [j2]Stéphane M. Meystre, Peter J. Haug:
Natural language processing to extract medical problems from electronic clinical documents: Performance evaluation. J. Biomed. Informatics 39(6): 589-599 (2006) - [c4]Stéphane M. Meystre, Peter J. Haug:
Improving the Sensitivity of the Problem List in an Intensive Care Unit by Using Natural Language Processing. AMIA 2006 - 2005
- [j1]Stéphane M. Meystre, Peter J. Haug:
Automation of a problem list using natural language processing. BMC Medical Informatics Decis. Mak. 5: 30 (2005) - [c3]Stéphane M. Meystre, Peter J. Haug:
Comparing Natural Language Processing Tools to Extract Medical Problems from Narrative Text. AMIA 2005 - [c2]Stéphane M. Meystre, Peter J. Haug:
Evaluation of Medical Problem Extraction from Electronic Clinical Documents Using MetaMap Transfer (MMTx). MIE 2005: 823-828 - 2003
- [c1]Stéphane M. Meystre, Peter J. Haug:
Medical Problem and Document Model for Natural Language Understanding. AMIA 2003
Coauthor Index
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