Li Shen, PhD
- PROFESSOR | Neuroscience
Research Topics:
Bioinformatics, Biomedical Informatics, Computational Biology, Epigenomics, Image Analysis, Mathematical Modeling of Biomedical Systems, Mathematical and Computational BiologyDr. Shen joined Mount Sinai in 2009 with a Ph.D. in computer science. He is currently a professor of bioinformatics with dual appointments at the department of Neuroscience and the department of Artificial Intelligence and Human Health. He has made contributions to large-scale sequencing analysis, bioinformatic tools development and machine learning applications to medical imaging and epigenomics. His current research interests include the applications of machine learning in healthcare and genomics. He has more than 100 publications with >12,000 total citations. See his Google scholar page for a full list of his publications. Visit Li Shen's Laboratory of Bioinformatics for more information on his research activities.
Multi-Disciplinary Training Areas
Artificial Intelligence and Emerging Technologies in Medicine [AIET], Genetics and Genomic Sciences [GGS], Neuroscience [NEU]Education
BS, Fudan University
PhD, Nanyang Technological University
Postdoc, University of California San Diego
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2022
Google Cloud Research Innovator -
2019
4D Technology Development -
2006
Interfaces in Science Award -
2000
ViaVoice National Campus Application Contest Excellence Prize
Machine learning
Dr. Shen has made many contributions to machine learning applications in medical imaging and epigenomics, including breast cancer detection and risk prediction using mammograms and automated genome annotation using ChIP-seq.
Large-scale next-generation sequencing data analysis
From 2009-present, the Shen lab has analyzed 10,000s of NGS samples with a total storage of more than 100 TB. The results have generated numerous publications in top-tier journals, such as Nature, Science, Neuron, Nature Neuroscience and Genome Biology. The Shen lab has also produced some of the most popular bioinformatic tools, such as ngs.plot (data mining and visualization of NGS data), diffReps (ChIP-seq differential analysis) and GeneOverlap (gene lists overlapping analysis).
Physicians and scientists on the faculty of the Icahn School of Medicine at Mount Sinai often interact with pharmaceutical, device and biotechnology companies 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 relationships with such companies.
Dr. Shen did not report having any of the following types of financial relationships with industry during 2022 and/or 2023: 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.