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OHDSI Natural Language Processing Working Group


The primary goal of the NLP working group is to promote the use of textual information from Electronic Health Records (EHRs) for observational studies under the OHDSI umbrella. To facilitate this objective, the group will develop methods and software that can be implemented to utilize clinical text for studies by the OHDSI community.

Project Lead

Project Coordinator

Vipina K Keloth

OHDSI NLP WG Monthly Meeting

When: Second Wednesday of every month at 1 PM - 2 PM CT

Where: Click here to join the meeting

Monthly Research Webinar: Upcoming - September 8, 2021 (as part of the WG meeting)

Title: Natural Language Processing for Clinical Excellence: The State of Practices, Opportunities, and Challenges
Abstract: Rapid growth in adoption of electronic health records (EHRs) has led to an unprecedented expansion in the availability of large longitudinal datasets. Large initiatives such as the Electronic Medical Records and Genomics (eMERGE) Network, the Patient-Centered Outcomes Research Network (PCORNet), and the Observational Health Data Science and Informatics (OHDSI) consortium, have been established and have reported successful applications of secondary use of EHRs in clinical research and practice. In these applications, natural language processing (NLP) technologies have played a crucial role as much of detailed patient information in EHRs is embedded in narrative clinical documents. Meanwhile, a number of clinical NLP systems, such as MedLEE, MetaMap/MetaMap Lite, cTAKES, MedTagger, and i2b2 have been developed and utilized to extract useful information from diverse types of clinical text, such as clinical notes, radiology reports, and pathology reports. This talk will walk through some successful applications of NLP techniques in the clinical domain with potential opportunities and challenges.

Presenter: Dr. Yanshan Wang
Yanshan Wang, PhD, FAMIA is vice chair of Research and assistant professor within the Department of Health Information Management at the University of Pittsburgh. His research interests focus on artificial intelligence (AI), natural language processing (NLP) and machine/deep learning methodologies and applications in health care. His research goal is to leverage different dimensions of data and data-driven computational approaches to meet the needs of clinicians, researchers, patients and customers. Prior to joining Pitt, Dr. Wang was assistant professor in the Department of AI & Informatics at Mayo Clinic. Yanshan has extensive collaborative research experience with physicians, epidemiology researchers, statisticians, NLP researchers, and IT technicians. He has served as investigators for multiple extramural NIH-funded projects and intramural operational projects. He has published over 50 peer-reviewed articles in high-impact medical informatics journals (e.g., JBI, JAMIA), and conferences (e.g., AMIA Annual Symposium, AMIA summit, IEEE BIBM). Dr. Wang is also active in organizing conference workshops and shared tasks in the medical informatics community, including the international Health NLP workshops and the national NLP clinical challenge (n2c2).

Ongoing Projects

  • Clinical Abbreviations
  • Post-acute sequelae of SARS-CoV-2 infection (PASC) study
  • Extraction, Transformation, and Load Process (ETL)
  • Note type normalization
  • Open source Python NLP package

Past Projects

  • Note_NLP table
  • COVID-19 testing normalization (TestNorm)
  • Note type
  • NLP tools: NLP Wrappers; THEIA; Ananke


Hua Xu Abraham Hartzema Feifan Liu
Anupama Gururaj David Sontag Paris Nicolas
Nigam Shah Arnab Bose Mark Dredze
Noemie Elhadad Lian Hu Masoud Rouhizadeh
Jon Duke Jan A Kors Malcolm McRoberts
Alexandre Yahi J van Der Lei Nishanth Parameshwar Pavinkurve
Thomas Ginter Peter R Rijnbeek Carol Friedman
Olga Patterson Vivienne Zhu Miao Chen
George Hripsack Bob Patterson Jianlin Shi
Vojtech Huser Michael Gurley Vassilis Koutkias
Mark Khayter Xiaoling Chen Dan Schlegel
Karthik Natarajan Hongfang Liu Mark V Mai
Min Jiang Hong Yu Todd Lingren
Scott DuVall Stephane Meystre Jose Posada
Xiao Dong Timothy Miller Andrew E Williams
Ning Shang Wendy Chapman Vignesh Srinivasan
Jessie Tenenbaum Elizabeth Marshall Yuan Luo
Kathleen Nogueira Noa Palmon Kelly Peterson
Chris Ryan Danielle Bitterman Jimyung Park
Kate Weber Alexander Sivura Patrick Alba
Tarun Xi Yang Meliha Yetisgen
T.M. Seinen Jiang Bian Xiyu Ding
Georgina Kennedy Yaoyun Zhang Rui Zhang
Paul Heider

Upcoming Meeting Dates (2021)

  • September 8
  • October 13
  • November 10
  • December 8


Past WG meetings (Agenda/Minutes/Recordings)

Microsoft Teams meeting

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projects/workgroups/nlp-wg.txt · Last modified: 2021/08/26 22:10 by vipina