Hongzhe Li (Lee), Ph.D.

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Perelman Professor in Biostatistics, Epidemiology, and Informatics
Department: Biostatistics and Epidemiology

Contact information
Department of Biostatistics and Epidemiology
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
B.S. (Mathematics/Information)
Peking University, 1989.
Ph.D. (Statistics)
University of Washington, 1995.
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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

Bittinger K, Zhao C, Li Y, Ford E, Friedman ES, Ni J, Kulkarni CV, Cai J, Tian Y, Liu Q, Patterson AD, Sarkar D, Chan SH, Maranas C, Saha-Shah A, Lund P, Garcia BA, Mattei LM, Gerber JS, Elovitz MA, Kelly A, DeRusso P, Kim D, Hofstaedter CE, Goulian M, Li H, Bushman FD, Zemel BS, Wu GD : Bacterial Colonization Reprograms the Neonatal Gut Metabolome Nature Microbiology Apr 2020 Notes: doi: 10.1038/s41564-020-0694-0. [Epub ahead of print]

Yarmarkovich M, Farrell A, Sison A, Di Marco M, Pichai R, Parris J, Monos D, Lee H, Stevanovic S, Maris J : Immunogenicity and Immune Silence in Human Cancer Frontiers in Immunology 11: 69, Mar 2020 Notes: doi: 10.3389/fimmu.2020.00069. eCollection 2020.

Cullen CM, Aneja KK, Beyhan S, Cho CE, Woloszynek S, Convertino M, McCoy SJ, Zhang Y, Anderson MZ, Alvarez-Ponce D, Smirnova E, Karstens L, Dorrestein PC, Li H, Sen Gupta A, Cheung K, Powers JG, Zhao Z, Rosen GL: Emerging Priorities for Microbiome Research. Frontiers in Microbiology 11: 136, Feb 2020 Notes: doi:10.3389/fmicb.2020.00136.

Ma R, Cai TT, Li H : Optimal Permutation Recovery in Permuted Monotone Matrix Model Journal of American Statistical Association Feb 2020 Notes: DOI: 10.1080/01621459.2020.1713794.

Ma R, Cai TT, Li H : Global and Simultaneous Hypothesis Testing for High-Dimensional Logistic Regression Models Journal of American Statistical Association 2020 Notes: doi: 10.1080/01621459.2019.1699421

Wang S, Cai TT, and Li, H: Hypothesis Testing for Phylogenetic Composition: A Minimum-Cost Flow Perspective Biometrika Mar 2020 Notes: DOI: 10.1093/biomet/asaa061 (available on 2022-03-01).

Gao B, Liu X, Li H, Cui Y: Integrative Analysis of Genetical Genomics Data Incorporating Network Structures. Biometrics 75(4): 1063-1075, Dec 2019 Notes: doi:10.1111/biom.13072.

Simon-Soro A, Sohn MB, McGinniss JE, Imai I, Brown MC, Knecht VR, Bailey A, Clarke EL, Cantu E, Li H, Bittinger K, Diamond JM, Christie JD, Bushman FD, Collman RG: Upper Respiratory Dysbiosis with a Facultative-dominated Ecotype in Advanced Lung Disease and Dynamic Change after Lung Transplant. Annals of the American Thoracic Society 16(11): 1383-1391, Nov 2019 Notes: doi: 10.1513/AnnalsATS.201904-299OC.

Lee JW, Moen EL, Punshon T, Hoen AG, Stewart D, Li H, Karagas MR, Gui J: An Integrated Gaussian Graphical Model to Evaluate the Impact of Exposures on Metabolic Networks. Computers in Biology and Medicine 114: 103417, Nov 2019 Notes: doi: 10.1016/j.compbiomed.2019.103417.

Cordero P, Parikh VN, Chin ET, Erbilgin A, Gloudemans MJ, Shang C, Huang Y, Chang AC, Smith KS, Dewey F, Zaleta K, Morley M, Brandimarto J, Glazer N, Waggott D, Pavlovic A, Zhao M, Moravec CS, Tang WHW, Skreen J, Malloy C, Hannenhalli S, Li H, Ritter S, Li M, Bernstein D, Connolly A, Hakonarson H, Lusis AJ, Margulies KB, Depaoli-Roach AA, Montgomery SB, Wheeler MT, Cappola T, Ashley EA: Pathologic Gene Network Rewiring Implicates PPP1R3A as a Central Regulator in Pressure Overload Heart Failure. Nature Communications 10(1): 2760, Jun 2019 Notes: doi: 10.1038/s41467-019-10591-5.

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Last updated: 04/19/2021
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