Wan-Ping Lee, PhD

Research Assistant Professor of Pathology and Laboratory Medicine
Perelman School of Medicine at the University of Pennsylvania

Contact InformationD103, Richards Medical Research Laboratories
3700 Hamilton Walk
Philadelphia, PA, 19104

Specialty Division


Research Expertise

My group focuses on discovering human genomic variations, especially structural variations such as copy number variations (deletions and duplications), insertions, tandem duplications, inversions, and translocations. They are substantial contributors to genetic diversity and are usually associated with human diseases. We are closely working on the Alzheimer’s Disease genomics data analysis and participating in the Alzheimer’s Disease Sequencing Project (ADSP) and Alzheimer’s Disease Genetics Consortium (ADGC).


B.B.A. (Management Information System), Chung Yuan Christian University, 2001
M.S. (Computer Science and Engineering), National Sun Yat-Sen University, 2004
Ph.D. (Electrical Engineering), National Taiwan University, 2009

Specialty Certification

Postgraduate Training

Postdoctoral associate, Department of Biology, Boston College, 2009-2013

Awards and Honors

1st Place, FPGA Design Contest, Ministry of Education, Taiwan, 2003
Honorable Mention, Semiconductor Design and Application Competition, Macronix Education Foundation, 2005
2nd Prize, IC/CAD Contest, Ministry of Education, Taiwan, 2005
EDA Scholarship for DAC and ICCAD regular papers, and UBooth poster, SpringSoft Education Foundation, 2006
Outstanding Research Award, Graduate Institute of Electronic Engineering, National Taiwan University, Taiwan, 2007
EDA Scholarship for DAC and ICCAD regular papers, and UBooth poster, SpringSoft Education Foundation, 2007
Scholarship for Graduate Students Study Abroad Program, National Science Council, Taiwan, 2007
Honorable Mention, IC/CAD Contest, Ministry of Education, Taiwan, 2007
Honorable Mention, IC/CAD Contest, Ministry of Education, Taiwan, 2008
Merit Award, Jackson Laboratory for Genomic Medicine, 2018
The 2018 Albert Nelson Marquis Lifetime Achievement, 2018
RF1AG074328, NIA/NIH, Copy Number Variation Identification And Association Study On Alzheimer'S Disease Whole Genome Sequencing Data, 2021-2024
P30 AG072979, Penn Alzheimer's Disease Research Center, CNV Identification and Association Study, 2021-2023

Memberships and Professional Organizations

Web Links

Selected Publications

The prediction of Alzheimer’s disease through multi-trait genetic modeling

Kaylyn Clark, Wei Fu, Chia-Lun Liu, Pei-Chuan Ho, Hui Wang, Wan-Ping Lee, Shin-Yi Chou, Li-San Wang and Jung-Ying Tzeng, Frontiers in Aging Neuroscience, 2023

The role of structural variations in Alzheimer’s disease and other neurodegenerative diseases

H. Wang, L.-S. Wang, G. Schellenberg, W.-P. Lee, Frontiers in Aging Neuroscience, 2023

Structural Variation Detection and Association Analysis of Whole-Genome-Sequence Data from 16,905 Alzheimer’s Diseases Sequencing Project Subjects

Hui Wang, Beth A. Dombroski, Po-Liang Cheng, Albert Tucci, Ya-Qin Si, John Farrell, Jung-Ying Tzeng, Yuk Yee Leung, John S. Malamon, The Alzheimer’s Disease Sequencing Project, Li-San Wang, Badri N. Vardarajan, Lindsay A. Farrer, Gerard D. Schellenberg, Wan-Ping Lee, In preparation for Nature Genetics, 2023

Whole genome sequencing analysis reveals new susceptibility loci and structural variants associated with Progressive Supranuclear Palsy

Hui Wang, Timothy S Chang, Beth Dombroski, Po-Liang Cheng, Vishakha Patil, Leopoldo Valiente-Banuet, Dan Geschwind, Gerard D Schellenberg, Wan-Ping Lee, In preparation for JAMA Neurology, 2023

Association of Common and Rare Variants with Alzheimer’s Disease in over 13,000 Diverse Individuals with Whole-Genome Sequencing from the Alzheimer’s Disease Sequencing Project

Wan-Ping Lee, Seung Hoan Choi, Margaret G Shea, Po-Liang Cheng, Beth A Dombroski, Achilleas N Pitsillides, Nancy L Heard-Costa, Hui Wang, Katia Bulekova, Amanda B Kuzma, Yuk Yee Leung, John J Farrell, Honghuang Lin, Adam Naj, Elizabeth E Blue11, Frederick Nusetor, Dongyu Wang, Eric Boerwinkle1, William S Bush, Xiaoling Zhang, Philip L De Jager, Josée Dupuis, Lindsay A Farrer, Myriam Fornage, Eden Martin, Margaret Pericak-Vance, Sudha Seshadri, Ellen M Wijsman, Li-San Wang, The Alzheimer’s Disease Sequencing Project, Gerard D Schellenberg, Anita L Destefano, Jonathan L Haines, Gina M Peloso, In preparation for Nature Communications, 2023

Scalable approach for functional analysis of whole-genome sequencing non-coding variants

P. P. Kuksa, E. Greenfest-Allen, J. Cifello, M. Ionita, H. Wang, H. Nicaretta, P.-L. Cheng, W.-P. Lee, L.-S. Wang, Y. Y. Leung, Human Molecular Genetics, 2022

Polygenic Risk Scores in Alzheimer’s Disease Genetics: Methodology, Applications, Inclusion, and Diversity

Clark K., Leung Y.Y., Lee WP, Voight B., Wang LS, Journal of Alzheimer’s Disease, 2022

Comprehensive analysis of alternative splicing in gastric cancer identifies epithelial-mesenchymal transition subtypes associated with survival

Jun Y, Suh Y, Park S, Lee J, Kim J, Lee S, Lee WP#, Olga A#, Yang H#, Lee C#, Cancer Research, 2022, PMID:34903603

Read article

JAX-CNV: A Whole Genome Sequencing-Based Algorithm for Copy Number Detection at Clinical Grade Level

Lee WP*, Zhu Q*, Yang X, Liu S, Cerveira E, Ryan M, Mil-Homens A, Bellfy L, Lee C, Zhang C, Genomics, Proteomics and Bioinformatics, 2022, PMID:35085778

Read article

SEAGLE: A Scalable Exact Algorithm for Large-Scale Set-based GxE Tests in Biobank Data

Chi JT, Ipsen ICF, Hsiao TH, Wang LS, Lee WP, Lu TP, Tzeng JY, Frontier in Genetics, 2021, PMID:34795690

Read article