Medical Problem and Document Model for Natural Language Understanding. - Stéphane M. Meystre; Peter J. Haug (AMIA, 2003)

Comparing Natural Language Processing Tools to Extract Medical Problems from Narrative Text. - Stéphane M. Meystre; Peter J. Haug (AMIA, 2005)

Evaluation of Medical Problem Extraction from Electronic Clinical Documents Using MetaMap Transfer (MMTx). - Stéphane M. Meystre; Peter J. Haug (MIE, 2005)

Automation of a problem list using natural language processing. - Stéphane M. Meystre; Peter J. Haug (BMC Medical Informatics Decis. Mak., 2005)

Improving the Sensitivity of the Problem List in an Intensive Care Unit by Using Natural Language Processing. - Stéphane M. Meystre; Peter J. Haug (AMIA, 2006)

Natural language processing to extract medical problems from electronic clinical documents: Performance evaluation. - Stéphane M. Meystre; Peter J. Haug (J. Biomed. Informatics, 2006)

Randomized controlled trial of an automated problem list with improved sensitivity. - Stéphane M. Meystre; Peter J. Haug (Int. J. Medical Informatics, 2008)

Detecting Intuitive Mentions of Diseases in Narrative Clinical Text. - Stéphane M. Meystre (AIME, 2009)

Inductive Creation of an Annotation Schema and a Reference Standard for De-identification of VA Electronic Clinical Notes. - Jeanmarie Mayer; Shuying Shen; Brett R. South; Stéphane M. Meystre; F. Jeff Friedlin; William R. Ray; Matthew H. Samore (AMIA, 2009)

A Clinical Use Case to Evaluate the i2b2 Hive: Predicting Asthma Exacerbations. - Stéphane M. Meystre; Vikrant G. Deshmukh; Joyce A. Mitchell (AMIA, 2009)

Automatically Detecting Medications and the Reason for their Prescription in Clinical Narrative Text Documents. - Stéphane M. Meystre; Julien Thibault; Shuying Shen; John F. Hurdle; Brett R. South (MedInfo, 2010)

Textractor: a hybrid system for medications and reason for their prescription extraction from clinical text documents. - Stéphane M. Meystre; Julien Thibault; Shuying Shen; John F. Hurdle; Brett R. South (J. Am. Medical Informatics Assoc., 2010)

Improving Classification of Medical Assertions in Clinical Notes. - Youngjun Kim; Ellen Riloff; Stéphane M. Meystre (ACL (2), 2011)

Domain and Application Ontologies for Medically Unexplained Syndromes. - Kristina Doing-Harris; Stéphane M. Meystre; Matthew H. Samore; Werner Ceusters (AMIA, 2012)

Generalizability and Comparison of Automatic Clinical Text De-Identification Methods and Resources. - Óscar Ferrández; Brett R. South; Shuying Shen; F. Jeffrey Friedlin; Matthew H. Samore; Stéphane M. Meystre (AMIA, 2012)

Determining Section Types to Capture Key Clinical Data for Automation of Quality Measurement for Inpatients with Chronic Heart Failure. - Jennifer H. Garvin; Julia Heavirland; Allison Weaver; Youngjun Kim; Bruce E. Bray; Daniel Bolton; Carol Hope; Andrew Redd; Sarah A. Maulden; Stéphane M. Meystre (AMIA, 2012)

A Survey of VHA Privacy Officers for the External Use of Automatically De-Identified Clinical Documents. - Neil Nokes; Stéphane M. Meystre; Brett R. South; Jeffrey Scehnet; Shuying Shen; Óscar Ferrández; F. Jeffrey Friedlin; Matthew Maw; Matthew H. Samore (AMIA, 2012)

On the Road Towards Developing a Publicly Available Corpus of De-identified Clinical Texts. - Brett R. South; Danielle L. Mowery; Óscar Ferrández; Shuying Shen; Ying Suo; Mingyuan Zhang; Annie Chen; Liqin Wang; Stéphane M. Meystre; Wendy Webber Chapman (AMIA, 2012)

A Hybrid Stepwise Approach for De-identifying Person Names in Clinical Documents. - Óscar Ferrández; Brett R. South; Shuying Shen; Stéphane M. Meystre (BioNLP@HLT-NAACL, 2012)

Common data model for natural language processing based on two existing standard information models: CDA+GrAF. - Stéphane M. Meystre; Sanghoon Lee; Chai Young Jung; Raphaël D. Chevrier (J. Biomed. Informatics, 2012)

Automated Concept and Relationship Extraction for Ontology Development. - Kristina Doing-Harris; Narong Boonsirisumpun; Kristin Potter; Yarden Livnat; Stéphane M. Meystre (AMIA, 2013)

Semi-automated Ontology Development System for Medically Unexplained Syndromes in the U.S. Veterans Population. - Stéphane M. Meystre; Kristina Doing-Harris; Narong Boonsirisumpun; Yarden Livnat; Kristin Potter (AMIA, 2013)

Pediatric Acute Appendicitis Treatment Devices Automatic Extraction from Diagnostic Imaging Reports in a Multi-Institutional Clinical Repository. - Stéphane M. Meystre; Ramkiran Gouripeddi; Abhisek Trivedi; Shawn Rangel (AMIA, 2013)

Applying Ontological Realism to Medically Unexplained Syndromes. - Kristina Doing-Harris; Stéphane M. Meystre; Matthew H. Samore; Werner Ceusters (MedInfo, 2013)

Improving Heart Failure Information Extraction by Domain Adaptation. - Youngjun Kim; Jennifer H. Garvin; Julia Heavirland; Stéphane M. Meystre (MedInfo, 2013)

Automatic Clinical Text De-Identification: Is It Worth It, and Could It Work for Me? - Stéphane M. Meystre; Hercules Dalianis; John S. Aberdeen; Bradley A. Malin (MedInfo, 2013)

BoB, a best-of-breed automated text de-identification system for VHA clinical documents. - Óscar Ferrández; Brett R. South; Shuying Shen; F. Jeffrey Friedlin; Matthew H. Samore; Stéphane M. Meystre (J. Am. Medical Informatics Assoc., 2013)

Medication Prescription Status Classification in Clinical Narrative Documents. - Youngjun Kim; Jennifer H. Garvin; Julia Heavirland; Jenifer Williams; Stéphane M. Meystre (AMIA, 2014)

Congestive Heart Failure Information Extraction Framework (CHIEF) Evaluation. - Stéphane M. Meystre; Youngjun Kim; Andrew Redd; Jennifer H. Garvin (AMIA, 2014)

Effect of Pre-annotation on Annotation Time. - Andrew Redd; Youngjun Kim; Stéphane M. Meystre; Julia Heavirland; Allison Weaver; Jenifer Williams; Jennifer H. Garvin (AMIA, 2014)

A System Usability Study Assessing a Machine-Assisted Interactive Interface to Support Annotation of Protected Health Information in Clinical Texts. - Brett R. South; Danielle L. Mowery; Chris Leng; Stéphane M. Meystre; Wendy W. Chapman (AMIA, 2014)

Generating Patient Problem Lists from the ShARe Corpus using SNOMED CT/SNOMED CT CORE Problem List. - Danielle L. Mowery; Mindy K. Ross; Sumithra Velupillai; Stéphane M. Meystre; Janyce Wiebe; Wendy W. Chapman (BioNLP@ACL, 2014)

Can Physicians Recognize Their Own Patients in De-identified Notes? - Stéphane M. Meystre; Shuying Shen; Deborah Hofmann; Adi V. Gundlapalli (MIE, 2014)

Text de-identification for privacy protection: A study of its impact on clinical text information content. - Stéphane M. Meystre; Óscar Ferrández; F. Jeffrey Friedlin; Brett R. South; Shuying Shen; Matthew H. Samore (J. Biomed. Informatics, 2014)

Evaluating the effects of machine pre-annotation and an interactive annotation interface on manual de-identification of clinical text. - Brett R. South; Danielle L. Mowery; Ying Suo; Jianwei Leng; Óscar Ferrández; Stéphane M. Meystre; Wendy W. Chapman (J. Biomed. Informatics, 2014)

De-identification of Unstructured Clinical Data for Patient Privacy Protection. - Stéphane M. Meystre (Medical Data Privacy Handbook, 2015)

Improving Detection of Reasons Not to Take a Medication by Leveraging Medication Prescription Status. - Youngjun Kim; Jennifer H. Garvin; Julia Heavirland; Stéphane M. Meystre (AMIA, 2015)

State of the Art of Clinical Narrative Report De-Identification and Its Future. - Özlem Uzuner; John S. Aberdeen; Stéphane M. Meystre; Mehmet Kayaalp 002 (AMIA, 2015)

Classification of Contextual Use of Left Ventricular Ejection Fraction Assessments. - Youngjun Kim; Jennifer H. Garvin; Mary K. Goldstein; Stéphane M. Meystre (MedInfo, 2015)

Heart Failure Medications Detection and Prescription Status Classification in Clinical Narrative Documents. - Stéphane M. Meystre; Youngjun Kim; Julia Heavirland; Jenifer Williams; Bruce E. Bray; Jennifer H. Garvin (MedInfo, 2015)

Automated concept and relationship extraction for the semi-automated ontology management (SEAM) system. - Kristina Doing-Harris; Yarden Livnat; Stéphane M. Meystre (J. Biomed. Semant., 2015)

Adapting existing natural language processing resources for cardiovascular risk factors identification in clinical notes. - Abdulrahman Khalifa; Stéphane M. Meystre (J. Biomed. Informatics, 2015)

Temporally Classifying Clinical Events Relative to Document Creation Time. - Abdulrahman Khalifa; Stéphane M. Meystre (AMIA, 2016)

Natural Language Processing Working Group Pre-Symposium: Graduate Student Consortium and 'Hackathon'. - 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 001 (AMIA, 2016)

Automated Dynamic Problem and Allergy Lists for Efficient Electronic Health Record Management. - Stéphane M. Meystre; Jianyin Shao; Greg M. Jones (AMIA, 2016)

UtahBMI at SemEval-2016 Task 12: Extracting Temporal Information from Clinical Text. - Abdulrahman Al Abdulsalam; Sumithra Velupillai; Stéphane M. Meystre (SemEval@NAACL-HLT, 2016)

Semi-automated Ontology Development and Management System Applied to Medically Unexplained Syndromes in the U.S. Veterans Population. - Stéphane M. Meystre; Kristina Doing-Harris (AIME, 2017)

Exploiting Unlabeled Texts with Clustering-based Instance Selection for Medical Relation Classification. - Youngjun Kim; Ellen Riloff; Stéphane M. Meystre (AMIA, 2017)

Identifying Falls Risk Screenings Not Documented with Administrative Codes Using Natural Language Processing. - Vivienne J. Zhu; Tina Walker; Robert W. Warren; Peggy Jenny; Stéphane M. Meystre; Leslie A. Lenert (AMIA, 2017)

Heart Failure Data for Patient Treatment Goals at the Point of Care: Automated Data Extraction and Consistent Reference Standard Importance. - Stéphane M. Meystre; Youngjun Kim; Glenn T. Gobbel; Michael E. Matheny; Andrew Redd; Bruce E. Bray; Jennifer H. Garvin (CRI, 2017)

Congestive heart failure information extraction framework for automated treatment performance measures assessment. - Stéphane M. Meystre; Youngjun Kim; Glenn T. Gobbel; Michael E. Matheny; Andrew Redd; Bruce E. Bray; Jennifer H. Garvin (J. Am. Medical Informatics Assoc., 2017)

Extraction of left ventricular ejection fraction information from various types of clinical reports. - Youngjun Kim; Jennifer H. Garvin; Mary K. Goldstein; Tammy S. Hwang; Andrew Redd; Daniel Bolton; Paul Heidenreich; Stéphane M. Meystre (J. Biomed. Informatics, 2017)

Ensemble-based Methods to Improve De-identification of Electronic Health Record Narratives. - Youngjun Kim; Paul M. Heider; Stéphane M. Meystre (AMIA, 2018)

Automatic Text De-Identification: How and When is it Acceptable? - Stéphane M. Meystre; David S. Carrell; Lynette Hirschman; John S. Aberdeen; Paul Fearn; Valentina Petkov; Jonathan C. Silverstein (AMIA, 2018)

Clinical Text Automatic De-Identification to Support Large Scale Data Reuse and Sharing: Pilot Results. - Stéphane M. Meystre; Paul M. Heider; Youngjun Kim; Andrew Trice; Gary Underwood (AMIA, 2018)

Cancer Type Classification by Jointly Using Words and Concepts from Electronic Health Record Text Notes. - Youngjun Kim; Stéphane M. Meystre (AMIA, 2019)

Text De-Identification Impact on Subsequent Machine Learning Applications. - Gary Underwood; Andrew Trice; Youngjun Kim; Jean-Karlo Accetta; Stéphane M. Meystre (AMIA, 2019)

Patient-Pivoted Automated Trial Eligibility Pipeline: The First of Three Phases in a Modular Architecture. - Paul M. Heider; Stéphane M. Meystre (MedInfo, 2019)

A Study of Medical Problem Extraction for Better Disease Management. - Youngjun Kim; Stéphane M. Meystre (MedInfo, 2019)

Impact of De-Identification on Clinical Text Classification Using Traditional and Deep Learning Classifiers. - Jihad S. Obeid; Paul M. Heider; Erin R. Weeda; Andrew J. Matuskowitz; Christine M. Carr; Kevin Gagnon; Tami L. Crawford; Stéphane M. Meystre (MedInfo, 2019)

Automatic trial eligibility surveillance based on unstructured clinical data. - Stéphane M. Meystre; Paul M. Heider; Youngjun Kim; Daniel B. Aruch; Carolyn D. Britten (Int. J. Medical Informatics, 2019)

A Meta-Analysis of Medical Concept Normalization Using Hierarchical Ontological Relations and Semantic Types. - Paul M. Heider; Youngjun Kim; Stéphane M. Meystre (AMIA, 2020)

Comparative Study of Various Approaches for Ensemble-based De-identification of Electronic Health Record Narratives. - Youngjun Kim; Paul M. Heider; Stéphane M. Meystre (AMIA, 2020)

Improving De-identification of Clinical Text with Contextualized Embeddings. - Youngjun Kim; Stéphane M. Meystre (AMIA, 2020)

De-Identification of Clinical Text: Stakeholders' Perspectives and Acceptance of Automatic De-Identification. - Stéphane M. Meystre; Jonathan C. Silverstein; Guergana Savova; Valentina Petkov; Bradley A. Malin (AMIA, 2020)

Leveraging health system telehealth and informatics infrastructure to create a continuum of services for COVID-19 screening, testing, and treatment. - 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; et al. (J. Am. Medical Informatics Assoc., 2020)

Ensemble method-based extraction of medication and related information from clinical texts. - Youngjun Kim; Stéphane M. Meystre (J. Am. Medical Informatics Assoc., 2020)

An artificial intelligence approach to COVID-19 infection risk assessment in virtual visits: A case report. - Jihad S. Obeid; Matthew Davis; Matthew Turner; Stéphane M. Meystre; Paul M. Heider; Edward C. O'Bryan; Leslie A. Lenert (J. Am. Medical Informatics Assoc., 2020)

Colonizing Microbiome as a Determinant of COVID-19 Outcome: A Pilot Study. - Alexander V. Alekseyenko; Bashir Hamidi; Stéphane M. Meystre (AMIA, 2021)

Overview and Descriptive Analysis of a New Ontology for Normalizing Section Types in Unstructured Clinical Notes. - Paul M. Heider; Stéphane M. Meystre (AMIA, 2021)

Evaluating the Downstream Performance Impact of Various Common Off-the-Shelf Clinical NLP Components. - Paul M. Heider; Stéphane M. Meystre (AMIA, 2021)

Clinical Concept Extraction Using Contextual String Embeddings. - Youngjun Kim; Paul M. Heider; Stéphane M. Meystre (AMIA, 2021)

Natural Language Processing and COVID-19 Predictive Analytics to Enable and Optimize SARS-CoV-2 Pooled Testing. - Stéphane M. Meystre; Paul M. Heider; Jihad S. Obeid; Alexander V. Alekseyenko; James E. Madory (AMIA, 2021)

A Natural Language Processing Tool Offering Data Extraction for COVID-19 Related Information (DECOVRI). - Paul M. Heider; Ronak M. Pipaliya; Stéphane M. Meystre (MedInfo, 2021)

Comparing Multiple Models for Section Header Classification with Feature Evaluation. - Ronak Pipaliya; Paul M. Heider; Stéphane M. Meystre (MedInfo, 2021)

Natural language processing enabling COVID-19 predictive analytics to support data-driven patient advising and pooled testing. - Stéphane M. Meystre; Paul M. Heider; Youngjun Kim; Matthew Davis; Jihad S. Obeid; James E. Madory; Alexander V. Alekseyenko (J. Am. Medical Informatics Assoc., 2021)

Post-Hoc Ensemble Generation for Clinical NLP: A Study of Concept Recognition, Normalization, and Context Attributes. - Paul M. Heider; Kexin Chen; Ronak Pipaliya; Stéphane M. Meystre (AMIA, 2022)

Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative. - 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; et al. (J. Am. Medical Informatics Assoc., 2022)

High Accuracy Open-Source Clinical Data De-Identification: The CliniDeID Solution. - Stéphane M. Meystre; Paul M. Heider (MedInfo, 2023)

AI-Based Gut-Brain Axis Digital Twins. - Stéphane M. Meystre; Ruud van Stiphout; Annelies Goris; Santiago Gaitan (MIE, 2023)

Large language models for biomedicine: foundations, opportunities, challenges, and best practices. - Satya S. Sahoo; Joseph M. Plasek; Hua Xu 001; Özlem Uzuner; Trevor Cohen; Meliha Yetisgen; Hongfang Liu; Stéphane M. Meystre; Yanshan Wang (J. Am. Medical Informatics Assoc., 2024)