Hongzhe Li (Lee), Ph.D.
Perelman Professor in Biostatistics, Epidemiology, and Informatics
Member, Biomedical Graduate Studies (BGS), University of Pennsylvania Perelman School of Medicine
Senior Scholar, Center for Clinical Epidemiology and Biostatistics, University of Pennsylvania Perelman School of Medicine
Director, Program in Statistical Evaluation of the Human Microbiome, University of Pennsylvania Perelman School of Medicine
Director, Center for Statistical Methods for Big Data, Department of Biostatistics and Epidemiology, University of Pennsylvania Perelman School of Medicine
Member, Penn Center for Precision Medicine, University of Pennsylvania Perelman School of Medicine
Vice Chair of Integrative Research, Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania Perelman School of Medicine
Member, Executive Committee, University of Pennsylvania Perelman School of Medicine, Applied Mathematics and Computational Sciences (AMCS)
Member, University of Pennsylvania Perelman School of Medicine,Faculty Advisory Committee for Research Computing
Department: Biostatistics and Epidemiology
Graduate Group Affiliations
Contact information
Department of Biostatistics and Epidemiology
University of Pennsylvania Perelman School of Medicine
215 Blockley Hall
423 Guardian Drive
Philadelphia, PA 19104-6021
University of Pennsylvania Perelman School of Medicine
215 Blockley Hall
423 Guardian Drive
Philadelphia, PA 19104-6021
Office: 215-573-5038
Fax: 215-573 1050
Fax: 215-573 1050
Email:
hongzhe@upenn.edu
hongzhe@upenn.edu
Education:
B.S. (Mathematics/Information)
Peking University, 1989.
Ph.D. (Statistics)
University of Washington, 1995.
Permanent linkB.S. (Mathematics/Information)
Peking University, 1989.
Ph.D. (Statistics)
University of Washington, 1995.
Description of Research Expertise
My methods reserach was mostly motivated by problems in genetics and genoimics. I have worked on a variety problems in statistical genetics and genomics, including methods for family-based genetic linkage and association analysis, methods for admixture mapping, methods for genome-wide association analysis, methods for analysis of microarray time course gene expression data, high dimensional regression analysis for genomic data, methods for copy number variation analysis and methods for analysis of next generation sequence data. I have published both statistical methodological research in top statistics/biostatistics journals (JASA, AOS, AOAS, Biometrika, Biometrics, Biostatistics etc ) and in top genetics journals (AJHG, Plos Genetics, etc) and collaborative research in top scientific journals (Science, NEJM, Nature, Nature Genetics, PNAS, Developmental Cell etc).Selected Publications
Deo J, Dubin R, Ren Y, Wang J, Feldman H, Shou H, Coresh J, Grams ME, Surapaneni AL, Cohen J, Kansal M, Rahman M, Dobre M, He J, Kelly T, Go AS, Kimmel PL, Vasan RS, Segal MR, Li H, Ganz P: Proteomic Assessment of the Risk of Secondary Cardiovascular Events among Individuals with CKD. Journal of the American Society of Nephrology 36(2): 231-241, Feb 2025.Yan B, Nam Y, Li L, Deek R, Li H, Ma S : Recent advances in deep learning and language models for studying the microbiome. Frontiers in Genetics(15), 1494474, Jan 2025.
Benitez AJ, Tanes C, Friedman ES, Zackular JP, Ford E, Gerber JS, DeRusso PA, Kelly A, Li H, Elovitz MA, Wu GD, Zemel B, Bittinger K: Antibiotic exposure is associated with minimal gut microbiome perturbations in healthy term infants. Microbiome 13(1): 21, Jan 2025.
Strauss Starling A, Ren Y, Li H, Spergel JM, Muir AB, Lynch KL, Liacouras CA, Falk GW: Reducing Eosinophil Counts in Eosinophilic Esophagitis in Children Is Associated With Reduction in Later Stricture Development. The American Journal of Gastroenterology 119(10): 2002-2009. Oct 2024.
Kumar A, Gwalani P, Iyer PG, Wang KK, Falk GW, Ginsberg GG, Lightdale CJ, Del Portillo A, Lagana SM, Li Y, Li H, Genkinger J, Jin Z, Rustgi AK, Wang TC, Wang HH, Quante M, Abrams JA: Shifts in Serum Bile Acid Profiles Associated With Barrett's Esophagus and Stages of Progression to Esophageal Adenocarcinoma. Clinical and Translational Gastroenterology 15(10): e1, Oct 2024.
Tu V, Ren Y, Tanes C, Mukhopadhyay S, Daniel SG, Li H, Bittinger K.: A quantitative approach to measure and predict microbiome response to antibiotics. mSphere 9(9): e0048824, Sep 2024.
Schlosser P, Surapaneni AL, Borisov O, Schmidt IM, Zhou L, Anderson A, Deo R, Dubin R, Ganz P, He J, Kimmel PL, Li H, Nelson RG, Porter AC, Rahman M, Rincon-Choles H, Shah V, Unruh ML, Vasan RS, Zheng Z, Feldman HI, Waikar SS, Köttgen A, Rhee EP, Coresh J, Grams ME; Chronic Renal Insufficiency Cohort (CRIC) Study Investigators and the CKD Biomarkers Consortium: Association of Integrated Proteomic and Metabolomic Modules with Risk of Kidney Disease Progression. Journal of the American Society of Nephrology 35(7): 923-935, Jul 2024.
Bustamante MS, Pierson SK, Ren Y, Bagg A, Brandstadter JD, Srkalovic G, Mango N, Alapat D, Lechowicz MJ, Li H, Van Rhee F, Lim MS, Fajgenbaum DC: Longitudinal, natural history study reveals the disease burden of idiopathic multicentric Castleman disease. Haematologica 109(7): 2196-2206, Jul 2024.
Deek RA, Ma S, Lewis J, Li H: Statistical and computational methods for integrating microbiome, host genomics, and metabolomics data. Elife(13), e88956, Jun 2024.
Lewis JD, Daniel SG, Li H, Hao F, Patterson AD, Hecht AL, Brensinger CM, Wu GD, Bittinger K; DINE-CD; SPARC IBD Investigator: Surgery for Crohn's Disease Is Associated With a Dysbiotic Microbiome and Metabolome: Results From Two Prospective Cohorts. Cellular and Molecular Gastroenterology and Hepatology 18(3): 101357, May 2024.