
Guo-Cheng Yuan, PhD
About Me
Dr. Guo-Cheng Yuan is a Professor of Computational Biology at Icahn School of Medicine at Mount Sinai. He is also a faculty member of the Icahn Genomics Institute. Prior to his current appointment, he was an Associate Professor at Dana-Farber Cancer Institute/Harvard Medical School and a Principal Faculty member at Harvard Stem Cell Institute. He obtained B.S and M.A degrees in Mathematics from Peking University, and a PhD degree in Mathematics from University of Maryland, followed by postdoctoral training at Brown University. Dr. Yuan transitioned into a computational biologist by taking up a postdoctoral fellow position at Harvard University before joining Dana-Farber as a faculty member. Dr. Yuan’s group has developed a number of computational methods for analyzing and interpreting large-scale biological data. Notable examples include methods for epigenomics (Haystack, diHMM, CUT&RUNTools), for single-cell analysis (SCUBA, GiniClust, Giotto), and for genome-editing (CRISPResso). For over a decade, Dr. Yuan’s group has collaborated with basic scientists and cancer biologists to elucidate the gene regulatory mechanisms in development and diseases.
Language
English
Position
PROFESSOR | Genetics and Genomic Sciences, PROFESSOR | Immunology & Immunotherapy
Research Topics
Bioinformatics, Brain, Cancer, Chromatin, Computational Biology, Epigenomics, Gene Regulation, Genomics, Immunology, Systems Biology
Multi-Disciplinary Training Areas
Artificial Intelligence and Emerging Technologies in Medicine [AIET], Genetics and Genomic Sciences [GGS]
Education
PhD, University of Maryland
Postdoc, Harvard University
Research
Publications
Selected Publications
- ONTraC characterizes spatially continuous variations of tissue microenvironment through niche trajectory analysis. Wen Wang, Shiwei Zheng, Sujung Crystal Shin, Joselyn Cristina Chávez-Fuentes, Guo Cheng Yuan. Genome Biology
- sCCIgen: a high-fidelity spatially resolved transcriptomics data simulator for cell–cell interaction studies. Xiaoyu Song, Joselyn C. Chavez-Fuentes, Weiping Ma, Weijia Fu, Sujung Crystal Shin, Pei Wang, Guo Cheng Yuan. Genome Biology
- Amygdala–liver signalling orchestrates glycaemic responses to stress. J. R.E. Carty, K. Devarakonda, R. M. O’Connor, A. Krek, D. Espinoza, M. Jimenez-Gonzalez, A. Alvarsson, R. F. Hampton, R. Li, Y. Qiu, S. Petri, A. Shtekler, A. Rajbhandari, K. Conner, M. Bayne, D. Garibay, J. Martin, V. Lehmann, L. Wang, K. Beaumont, I. Kurland, G. C. Yuan, P. J. Kenny, S. A. Stanley. Nature
Industry Relationships
Physicians and scientists on the faculty of the Icahn School of Medicine at Mount Sinai often interact with pharmaceutical, device, biotechnology companies, and other outside entities to improve patient care, develop new therapies and achieve scientific breakthroughs. In order to promote an ethical and transparent environment for conducting research, providing clinical care and teaching, Mount Sinai requires that salaried faculty inform the School of their outside financial relationships.
Dr. Yuan did not report having any of the following types of financial relationships with industry and other outside entities during 2025 and/or 2026: consulting, scientific advisory board, industry-sponsored lectures, service on Board of Directors, participation on industry-sponsored committees, equity ownership valued at greater than 5% of a publicly traded company or any value in a privately held company. Please note that this information may differ from information posted on corporate sites due to timing or classification differences.
Mount Sinai’s faculty policies relating to faculty collaboration with industry are posted on our website. Patients may wish to ask their physician about the activities they perform for companies.