Yi Xing, PhD

male silhouette icon
Yi Xing, PhD, is the Francis West Lewis Endowed Chair and Director of the Center for Computational and Genomic Medicine at the Children’s Hospital of Philadelphia.

Appointments and Referrals: 1-800-TRY-CHOP (1-800-879-2467)


Education and Training


Postdoctoral Fellow in Statistics and Developmental Biology - Stanford University, Stanford, CA

Graduate Degree

PhD in Molecular Biology, Bioinformatics - University of California Los Angeles, Los Angeles, CA

Titles and Academic Titles

Francis West Lewis Endowed Chair

Executive Director, Center for Computational and Genomic Medicine

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

Departments and Services

Research Interests

Computational biology and genomics of RNA processing and regulation




Xin R, Gao Y, Gao Y, Wang R, Kadash-Edmondson KE, Liu B, Wang Y, Lin L, Xing Y. isoCirc catalogs full-length circular RNA isoforms in human transcriptomes. Nat Commun 12(): 266, 2021, PMID:33436621.


Demirdjian, L., Xu, Y., Bahrami-Samani, E., Pan, Y., Stein, S., Xie, Z., Park, E., Wu, Y. N., Xing, Y. Detecting Allele-Specific Alternative Splicing from Population-Scale RNA-Seq Data. Am J Hum Genet 107(3): 461-472, 2020.

Zhang, Y., Yang, H. T., Kadash-Edmondson, K., Pan, Y., Pan, Z., Davidson, B. L., Xing, Y. Regional Variation of Splicing QTLs in Human Brain.  Am J Hum Genet 107(2): 196-210, 2020.

Phillips John W, Pan Yang, Tsai Brandon L, Xie Zhijie, Demirdjian Levon, Xiao Wen, Yang Harry T, Zhang Yida, Lin Chia Ho, Cheng Donghui, Hu Qiang, Liu Song, Black Douglas L, Witte Owen N, Xing Yi. Pathway-guided analysis identifies Myc-dependent alternative pre-mRNA splicing in aggressive prostate cancers.. Proceedings of the National Academy of Sciences of the United States of America 117(10): 5269-5279, 2020, PMID:32086391.


Zhang Zijun, Pan Zhicheng, Ying Yi, Xie Zhijie, Adhikari Samir, Phillips John, Carstens Russ P, Black Douglas L, Wu Yingnian, Xing Yi. Deep-learning augmented RNA-seq analysis of transcript splicing. Nat Methods 16(4): 307-310, 2019, PMID:30923373.


Park E, Pan Z, Zhang Z, Lin L, Xing Y. The expanding landscape of alternative splicing variation in human populations. Am J Hum Genet 102(1): 11-26, 2018, PMID:29304370.


Molinie B*, Wang J*, Lim KS, Hillebrand R, Lu ZX, Wittenberghe NV, Howard BD, Daneshvar K, Mullen AC, Dedon P, Xing Y*, Giallourakis CC*. m(6)A-LAIC-seq reveals the census and complexity of the m(6)A epitranscriptome. Nat Methods 13(8): 692-698, 2016, PMID:27376769.


Shen S, Park JW, Lu ZX, Lin L, Henry MD, Wu YN, Zhou Q, Xing Y. rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data. Proc Natl Acad Sci USA 111(51): E5593-E5601, 2014, PMID:25480548.

Batista PJ, Molinie B , Wang J, Qu K, Zhang J, Li L, Bouley DM, Lujan E, Haddad B, Daneshvar K, Carter AC, Flynn RA, Zhou C, Lim KS, Dedon P, Wernig M, Mullen AC, Xing Y*, Giallourakis CC*, Chang HY*. m(6)A RNA modification controls cell fate transition in mammalian embryonic stem cells. Cell Stem Cell 15(6): 707-719, 2014, PMID:25456834.


Xing Y, Lee C. Alternative splicing and RNA selection pressure--evolutionary consequences for eukaryotic genomes. Nat Rev Genet 7(7): 499-509, 2006, PMID:16770337.

Awards and Honors

2015-2016, Rose Hills Foundation Scholar
2015-present, Oversea Expert, Chinese Academy of Sciences
2013-2015, Alfred P. Sloan Research Fellowship
2011, Senior Visiting Fellow, UCLA Institute for Pure and Applied Mathematics
2010-2012, Basil O'Connor Starter Scholar Research Award, March of Dimes Foundation
2009-2012, Junior Faculty Grant, Edward Mallinckrodt, Jr. Foundation
2006, Finalist, Walter M. Fitch Prize, Society for Molecular Biology and Evolution
2006, Award for Outstanding Self-Financed Students, Chinese Government
2005-2006, Dissertation Year Fellowship, University of California Los Angeles
2005, Amgen Dissertation Award, Molecular Biology Institute, University of California Los Angeles
2005, Student Fellow Travel Award, RNA Society

Leadership and Memberships

Memberships in Professional Organizations

2010-present, Society for Molecular Biology and Evolution (SMBE)
2006-present, International Society of Computational Biology (ISCB)
2006-present, American Society of Human Genetics (ASHG)
2005-present, RNA Society