M
Mark Gerstein
Researcher at Yale University
Publications - 802
Citations - 172183
Mark Gerstein is an academic researcher from Yale University. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 168, co-authored 751 publications receiving 149578 citations. Previous affiliations of Mark Gerstein include Rutgers University & Structural Genomics Consortium.
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Journal ArticleDOI
Genomic and proteomic analysis of the myeloid differentiation program: global analysis of gene expression during induced differentiation in the MPRO cell line
Zheng Lian,Yuval Kluger,Dov Greenbaum,David Tuck,Mark Gerstein,Nancy Berliner,Sherman M. Weissman,Peter E. Newburger +7 more
TL;DR: This first time such a relationship between mRNA and protein in terms of simultaneous changes in their levels over multiple time points is studied, and it is found that it gives a much stronger correlation, consistent with the hypothesis that a substantial proportion of protein change is a consequence of changed mRNA levels, rather than posttranscriptional effects.
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An integrated system for studying residue coevolution in proteins
TL;DR: An integrated online system that enables comparative analyses with a comprehensive set of commonly used scoring functions, including Statistical Coupling Analysis (SCA), Explicit Likelihood of Subset Variation (ELSC), mutual information and correlation-based methods is developed.
Journal ArticleDOI
Comparing genomes in terms of protein structure: surveys of a finite parts list
Mark Gerstein,Hedi Hegyi +1 more
TL;DR: An overview of the emerging field of structural genomics is given, describing how genomes can be compared in terms of protein structure, and finding that microbial genomes have similar fractions of strands and helices even though they have significantly different amino acid composition.
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Passenger Mutations in More Than 2,500 Cancer Genomes: Overall Molecular Functional Impact and Consequences.
Sushant Kumar,Jonathan Warrell,Shantao Li,Patrick McGillivray,William Meyerson,Leonidas Salichos,Arif Harmanci,Arif Harmanci,Alexander Martinez-Fundichely,Calvin Wing Yiu Chan,Calvin Wing Yiu Chan,Morten Muhlig Nielsen,Lucas Lochovsky,Yan Zhang,Yan Zhang,Xiaotong Li,Shaoke Lou,Jakob Skou Pedersen,Jakob Skou Pedersen,Carl Herrmann,Carl Herrmann,Gad Getz,Gad Getz,Ekta Khurana,Mark Gerstein +24 more
TL;DR: The comprehensive variant dataset from the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes project is leveraged to demonstrate that-in addition to the dichotomy of high- and low-impact variants-there is a third group of medium-impact putative passengers, including undetected weak drivers.
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Pangolin genomes and the evolution of mammalian scales and immunity
Siew Choo,Mike Rayko,Tze King Tan,Ranjeev Hari,Aleksey Komissarov,Wei Yee Wee,Andrey A. Yurchenko,Sergey Kliver,Gaik Tamazian,Agostinho Antunes,Richard K. Wilson,Wesley C. Warren,Klaus-Peter Koepfli,Patrick Minx,Ksenia Krasheninnikova,Antoinette Kotze,Desiré L. Dalton,Elaine Vermaak,Ian C. Paterson,Pavel Dobrynin,Frankie Thomas Sitam,Jeffrine J. Rovie-Ryan,Warren E. Johnson,Aini Mohamed Yusoff,Shu-Jin Luo,Kayal Vizi Karuppannan,Gang Fang,Deyou Zheng,Mark Gerstein,Leonard Lipovich,Stephen J. O'Brien,Guat Jah Wong +31 more
TL;DR: It is proposed that scale development was an innovation that provided protection against injuries or stress and reduced pangolin vulnerability to infection, and perhaps a new natural IFNE-deficient animal model for studying mammalian immunity.