Expertise and Research Interests:

Dr. Fung received his medical degree from the University of Hong Kong, Master of Science degree (Computer-based Information Systems) from the University of Sunderland, UK; and Master of Arts degree (Biomedical Informatics) from Columbia University, New York. Combining the clinical knowledge of his long surgical career, the experience in building real-life medical information systems and the skills acquired from formal informatics education, Dr. Fung’s research focuses on the use of biomedical terminologies in electronic health records. He aims to provide practical solutions to overcome obstacles in the adoption of terminology standards. The subjects of his research include inter-terminology mapping, problem list terminologies and drug terminologies.

Professional Activities:

He serves as the chair of the Mapping Special Interest Group of the International Health Terminology Standards Development Organization (IHTSDO) since 2009. He is a member of the American Medical Informatics Association (AMIA). He is a member of the NLM’s UMLS Steering Committee.

Honors and Awards:

Since joining NLM in 2003, Dr. Fung has received 2 individual and 5 group NLM Special Act or Service Awards. He received an individual NIH Merit Award in 2009 for sustained excellence in multiple initiatives involving applied medical terminology research.

Publications:

Fung KW, Baye F, Baik SH, McDonald CJ . Nirmatrelvir and Molnupiravir and Post–COVID-19 Condition in Older Patients. JAMA Internal Medicine. https://doi.org/10.1001/JAMAINTERNMED.2023.5099.

Fung KW, Baye F, Baik SH, Zheng Z, McDonald CJ . Prevalence and characteristics of long COVID in elderly patients: An observational cohort study of over 2 million adults in the US. PLoS Medicine, 20(4). https://doi.org/10.1371/JOURNAL.PMED.1004194.

Fung KW, Baik SH, Baye F, Zheng Z, Huser V, McDonald CJ. Effect of common maintenance drugs on the risk and severity of COVID-19 in elderly patients. PLoS ONE 17(4): e0266922. https://doi.org/10.1371/journal.pone.0266922.

Wijesiriwardene T, Nguyen V, Bajaj GK, Yip HY, Javangula V, Mao Y, Fung KW, Sheth A, Parthasarathy S, Bodenreider O. UBERT: A Novel Language Model for Synonymy Prediction at Scale in the UMLS Metathesaurus. arXiv:2204.12716 https://doi.org/10.48550/arXiv.2204.12716.

Williams ND, Huser V, Rhame F, Mayer CS, Fung KW. The changing patterns of comorbidities associated with human immunodeficiency virus infection, a longitudinal retrospective cohort study of Medicare patients. Medicine (Baltimore). 2021;100(16):e25428. doi:10.1097/MD.0000000000025428.

Baik SH, Fung K-W, McDonald CJ. The mortality risk of Proton Pump Inhibitors in 1.9 Million US Seniors: an extended Cox survival analysis. Clin Gastroenterol Hepatol 2021. https://doi.org/10.1016/j.cgh.2021.01.014.

Mao Y, Fung KW. Use of Word and Graph Embedding to Measure Semantic Relatedness between UMLS Concepts. Journal of the American Medical Informatics Association, 27(10), 1538-1546.

Fung KW, Xu J, Bodenreider O. The new International Classification of Diseases 11th edition – A comparative analysis with ICD-10 and ICD-10-CM. J Am Med Inform Assoc. 2020 May 1;27(5):738-746. doi: 10.1093/jamia/ocaa030.

Goodwin T, Demner-Fushman D, Fung K, Do P. Overview of the TAC 2019 Track on Drug-Drug Interaction Extraction from Drug Label. Proceedings of the Text Analysis Conference (TAC) 20 19, Gathersburg, MD, USA, November 12-13, 2019.

Mao Y, Fung K, Demner-Fushman D. Drug-drug Interaction Extraction via Transfer Learning [Poster]. AMIA Fall Symposium, 2019.

Mayer CS, Williams N, Fung KW, Huser V. Evaluation of Research Accessibility and Data Elements of HIV Registries. Curr HIV Res. 2019;17(4):258-265. doi: 10.2174/1570162X17666190924195439.

Zolnoori M, Fung K, Patrick DB, Fontelo P, Kharrazi H, Faiola A, Shah ND, Shirley WYS, Eldredge CE, Luo J, Conway M, Zhu J, Park SK, Xu K, Moayyed H. The PsyTAR dataset: From patients generated narratives to a corpus of adverse drug events and effectiveness of psychiatric medications. Data Brief. 2019 Mar 15;24:103838. doi: 10.1016/j.dib.2019.103838. eCollection 2019 Jun.

Mayer CS, Williams N, Gold S, Fung KW, Huser V. Sharing of Individual Participant Data from Clinical Trials: General Comparison and HIV Use Case. AMIA Annu Symp Proc. 2020 Mar 4;2019:647-654.

Zolnoori M, Fung K, Patrick TB, Fontelo P, Kharrazi H, Faiola A, Wu YSS, Eldredge CE, Luo J, Conway M, Zhu J, Park SK, Xu K, Moayyed H, Goudarzvand S. A systematic approach for developing a corpus of patient reported adverse drug events: A case study for SSRI and SNRI medications. J Biomed Inform. 2019 Feb;90:103091. doi: 10.1016/j.jbi.2018.12.005. Epub 2019 Jan 4.

Demner-Fushman D, Fung K, Do P, Boyce R, Goodwin T. Overview of the TAC 2018 Drug-Drug Interaction Extraction from Drug Labels Track. Proceedings of the Text Analysis Conference (TAC) 2018, Gaithersburg, MD, USA, November 13-14, 2018.

Zolnoori M, Fung K, Fontelo P, Kharrazi H, Faiola A, Wu YSS, Stoffel V, Patrick T. Identifying the Underlying Factors Associated With Patients' Attitudes Toward Antidepressants: Qualitative and Quantitative Analysis of Patient Drug Reviews. JMIR Ment Health. 2018 Sep 30;5(4):e10726. doi: 10.2196/10726.

Goss FR, Lai KH, Topaz M, Acker WW, Kowalski L, Plasek JM, Blumenthal KG, Seger DL, Slight SP, Fung KW, Chang FY, Bates DW, Zhou L. A value set for documenting adverse reactions in electronic health records. J Am Med Inform Assoc. 2018 Jun 1;25(6):661-669. doi: 10.1093/jamia/ocx139.

Fung K, Xue Z, Ameye F, Gutierrez AR, D'Have A. Achieving Logical Equivalence between SNOMED CT and ICD-10-PCS Surgical Procedures. AMIA Annu Symp Proc. 2018 Apr 16;2017:724-733. eCollection 2017.

Zolnoori M, Patrick TB, Fung KW, Fontelo P, Faiola A, Wu YSS, Xu K, Zhu J, Eldredge CE. Development of an Adverse Drug Reaction Corpus from Consumer Health Posts. Workshop: American Medical Informatics Association, Annual Symposium, 2017.

Fung K, Gutierrez A, Ameye F, D’Have A, Ariel B. Demonstrating the Benefits of Mapping SNOMED CT to ICD-10-PCS through a Prototype Application for End User Implementation. SNOMED Expo Oct 2017, Bratislava, Slovakia pp. 0

Bhupatiraju R, Huser V, Fung K. Phenotype modelling tools utilizing standardized EHR data in a Common Data Model format [Poster]. NIH Research Festival 2017.

Fung K. Medical Terminologies in Action. Technical Report to the LHNCBC Board of Scientific Counselors September 2017.

Sun H, Li J, Wu Y, Wang L, Fung K. Using an Ontology-Based Approach to Handle Author Affiliations in a Large Biomedical Citation Database. Stud Health Technol Inform. 2017;245:1338.

Bhupatiraju R, Fung K, Bodenreider O. MetaMapLite in Excel: Biomedical named-entity recognition for non-technical users. Stud Health Technol Inform (Proc Medinfo): 1252.

Fung K, Kapusnik-Uner J, Cunningham J, Higby-Baker S, Bodenreider O. Comparison of three commercial knowledge bases for detection of drug-drug interactions in clinical decision support. J Am Med Inform Assoc. 2017 Jul 1;24(4):806-812. doi: 10.1093/jamia/ocx010.

Fung K, Xu J, Amey F, Gutierrez AR, D'Have A. Leveraging Lexical Matching and Ontological Alignment to Map SNOMED CT Surgical Procedures to ICD-10-PCS. AMIA Annu Symp Proc. 2017 Feb 10;2016:570-579. eCollection 2016.

Topaz M, Goss F, Blumenthal K, Lai K, Seger DL, Slight SP, Wickner PG, Robinson GA, Fung KW, McClure RC, Spiro S, Acker WW, Bates DW, Zhou L. Towards improved drug allergy alerts: Multidisciplinary expert recommendations. Int J Med Inform. 2017 Jan;97:353-355. doi: 10.1016/j.ijmedinf.2016.10.006. Epub 2016 Oct 6.

Madani S, Henderson J, Fung K. Development of an oncology subset of SNOMED CT based on patient notes. AMIA Annu Symp Proc 2016: 91-92.

Fung KW, Richesson R, Smerek M, Pereira KC, Green BB, Patkar A, Clowse M, Bauck A, Bodenreider O. Preparing for the ICD-10-CM Transition: Automated Methods for Translating ICD Codes in Clinical Phenotype Definitions. EGEMS (Wash DC). 2016 Apr 12;4(1):1211. doi: 10.13063/2327-9214.1211. eCollection 2016.

Fung KW, Xu J. An exploration of the properties of the CORE problem list subset and how it facilitates the implementation of SNOMED CT. J Am Med Inform Assoc. 2015 May;22(3):649-58. doi: 10.1093/jamia/ocu022. Epub 2015 Feb 26.

Fung KW, Richesson R, Bodenreider O. Coverage of rare disease names in standard terminologies and implications for patients, providers, and research. AMIA Annu Symp Proc. 2014 Nov 14;2014:564-72. eCollection 2014.

Richesson RL, Fung K, Bodenreider O. Coverage of rare disease names in cinical coding systems and ontologies and implications for electronic health records-based research [Poster]. Proc 5th Int'l Conf Conference on Biomedical Ontology.

Fung K, Kayaalp M, Callaghan FM, McDonald CJ. Comparison of electronic pharmacy prescription records with manually collected medication histories in an emergency department. Ann Emerg Med. 2013 Sep;62(3):205-11. doi: 10.1016/j.annemergmed.2013.04.014. Epub 2013 May 18.

Fung KW, Jao CS, Demner-Fushman D. Extracting drug indication information from structured product labels using natural language processing. J Am Med Inform Assoc. 2013 May 1;20(3):482-8. doi: 10.1136/amiajnl-2012-001291. Epub 2013 Mar 9.

Fung KW, Bodenreider O. Knowledge representation and ontologies. Richesson RL, Andrews JE (Eds.). Clinical Research Informatics, Health Informatics, DOI 10.1007/978-1-84882-448-5_14, Springer-Verlag London Limited Publishing 2012.

Fung KW, Xu J. Synergism between the mapping projects from SNOMED CT to ICD-10 and ICD-10-CM. AMIA Annu Symp Proc. 2012;2012:218-27. Epub 2012 Nov 3.

Xu J, Fung KW. Handling age specification in the SNOMED CT to ICD-10-CM cross-map. AMIA Annu Symp Proc. 2012;2012:1014-22. Epub 2012 Nov 3.

Fung K, Xu J, Rosenbloom ST, Mohr D, Maram N. Testing Three Problem List Terminologies in a simulated data entry environment. AMIA Annu Symp Proc. 2011;2011:445-54. Epub 2011 Oct 22.

Campbell JR, Xu J, Fung K. Can SNOMED CT fulfill the vision of a compositional terminology? Analyzing the use case for problem list. AMIA Annu Symp Proc. 2011;2011:181-8. Epub 2011 Oct 22.

Jao CS, Fung KW, Demner-Fushman D. Identifying indications for drugs in drug package inserts. AMIA Annual Symposium Proceedings 2010. November 2010

Fung K, Scichilone R, Giannangelo K. Benefits and Use Cases of a SNOMED CT to ICD-10 Map. . AMIA Annu Symp Proc 2010: 1049.

Zhu VJ, Fung K. Extraction and Comparison of Drug Class Information From Standard Terminologies. AMIA Annu Symp Proc. November 2010:1327.

Fung KW, McDonald C, Srinivasan S. The UMLS-CORE project: a study of the problem list terminologies used in large healthcare institutions. J Am Med Inform Assoc. 2010 Nov-Dec;17(6):675-80. doi: 10.1136/jamia.2010.007047.

Fung K, Berglund D, Scichilone R, Brear H, Giannangelo K. SNOMED CT to ICD-10 map development process diagram. Meeting of the WHO Collaborating Centers for the Family of International Classifications. October 2009.

Fung K, Berglund D, Scichilone R, Brear H, Giannangelo K. SNOMED CT to ICD-10 mapping project update - a joint task for IHTSDO and WHO-FIC. Meeting of the WHO Collaborating Centers for the Family of International Classifications. October 2009.

McDonald CJ, Fung K, Wang Y, Lynch P, Hook J, Vreeman D. Towards a standardized HL7 clinical data capture tool – with a trial implementation in NLM’s personal health record. 10th International HL7 Interoperability Conference. May 2009.

Fung KW. Applied Medical Terminology Research. April 2009 Technical Report to the LHNCBC Board of Scientific Counselors.

Sneiderman CA, Demner-Fushman D, Fung KW, Bray B. UMLS-based Automatic Image Indexing. AMIA Annu Symp Proc; 2008 Nov 8-12; Washington DC. p. 1141.

Fung KW, McDonald C, Bray BE. RxTerms - a drug interface terminology derived from RxNorm. AMIA Annu Symp Proc. 2008 Nov 6:227-31

Richesson RL, Fung KW, Krischer JP. Heterogeneous but 'Standard' Coding Systems for Adverse Events: Issues in Achieving Interoperability Between Apples and Oranges. Contemp Clin Trials. 2008 Sep;29(5):635-45. Epub 2008 Mar 5.

Fung KW, Bodenreider O, Aronson AR, Hole WT, Srinivasan S. Combining Lexical and Semantic Methods of Inter-terminology Mapping Using the UMLS. Stud Health Technol Inform. 2007;129(Pt 1):605-9.

Aronson AR, Bodenreider O, Demner-Fushman D, Fung KW, Lee VK, Mork JG, Névéol A, Peters L, Rogers WJ. From indexing the biomedical literature to coding clinical text: experience with MTI and machine learning approaches. Proc 2007 Workshop BioNL'07, June 2007, pp. 105-112, Prague, Czech Republic.

Fung KW, Hole WT, Srinivasan S. Who is using the UMLS and how - insights from the UMLS user annual reports. AMIA Annu Symp Proc. 2006:274-8.

Fung KW, Bodenreider O. Utilizing the UMLS for Semantic Mapping between Terminologies. AMIA Annu Symp Proc. 2005:266-70.

Fung KW, Vogel LH. Will decision support in medications order entry save money? A return on investment analysis of the case of the Hong Kong hospital authority. AMIA Annu Symp Proc. 2003:244-8.

Cheung NT, Fung K, Wong KC, Cheung A, Cheung J, Ho W, Cheung C, Shung E, Fung V, Fung H. Medical Informatics-the State of the Art In the Hospital Authority. Int J Med Inform. July 2001;62(2-3):113-9.

Fung K, Lau Y, Fielding R, Or A, Yip AW. The impact of mastectomy, breast-conserving treatment and immediate breast reconstruction on the quality of life of Chinese women. ANZ J Surg. April 2001;71(4):202-6.

Fung V, Cheung NT, Chu YC, Chow YY, Tung Y, Wong KC, Fung KW, et al.. Statistical data collection as a by-product of clinical documentation. APAMI – MIC 2000 Conference. September 2000.

Kwok CK, Cheung NT, Fung KW, et al.. The electronic patient record in the hospital authority. APAMI – MIC 2000 Conference. September 2000.