Cuddapah Lab

Suresh Cuddapah, Ph.D.

Associate Professor, Department of Environmental Medicine and Biochemistry and Molecular Pharmacology

Contact Info:

Address: 341 East 25th Street, New York, NY 10010
Phone: 646-754-9458



Key Interests

Epigenetics, Epigenomics, Chromatin structure, Histone modifications, Insulators, Environmental Carcinogenesis

Biographic Details:

Graduate Education: Ph.D. University of Mysore, Mysore India

Postdoctoral Training: National Institutes of Health, USA

Academic Appointments: Associate Professor, Departments of Environmental Medicine and Biochemistry and Molecular Pharmacology

Research Interests:

Our laboratory is interested in understanding the epigenetic regulation of chromatin structure and gene expression programs during development, differentiation and disease initiation and progression. Compartmentalization of chromatin into active and silent domains is important for maintaining normal gene expression profiles. Our studies have shown that the insulator binding protein CTCF delineates the active and silent chromatin domains and that the loss of CTCF binding results in spreading of repressive chromatin, leading to gene silencing. Currently, we are investigating the role of transcription factors and epigenetic features that are involved in maintaining normal chromatin architecture and the anomalies that lead to changes in transcriptional program.

Another focus of our laboratory is to elucidate the mechanisms underlying gene expression alterations induced by environmental pollutants. The mutagenic potential of various environmental pollutants including several heavy metals are very low and do not correlate with their carcinogenic potential. Our studies show that nickel, an environmental carcinogen, could alter gene expression by disrupting chromatin domain structure. Currently, we are investigating the alterations to the epigenomic landscape induced by environmental carcinogens and their functional consequences.

Selected Publications:

Nuclear Factor κB1/RelA Mediates Inflammation in Human Lung Epithelial Cells at Atmospheric Oxygen Levels.
Jagannathan L, Jose CC, Arita A, Kluz T, Sun H, Zhang X, Yao Y, Kartashov AV, Barski A, Costa M, Cuddapah S.
J Cell Physiol. 2015 Nov 20. doi: 10.1002/jcp.25262. [Epub ahead of print]

Epigenetic dysregulation by nickel through repressive chromatin domain disruption.
Jose CC, Xu B, Jagannathan L, Trac C, Mallela RK, Hattori T, Lai D, Koide S, Schones DE, Cuddapah S.
Proc Natl Acad Sci U S A., 111(40):14631-6, 2014.

Insulators recruit histone methyltransferase dMes4 to regulate chromatin of flanking genes.
Lhoumaud P, Hennion M, Gamot A, Cuddapah S, Queille S, Liang J, Micas G, Morillon P, Urbach S, Bouchez O, Severac D, Emberly E, Zhao K, Cuvier O.
EMBO J., Jul 17;33(14):1599-613, 2014.

Chromatin immunoprecipitation indirect peaks highlight long-range interactions of insulator proteins and Pol II pausing.
Liang J, Lacroix L, Gamot A, Cuddapah S, Queille S, Lhoumaud P, Lepetit P, Martin PG, Vogelmann J, Court F, Hennion M, Micas G, Urbach S, Bouchez O, Nöllmann M, Zhao K, Emberly E, Cuvier O.
Molecular and Cellular Biology, 31(4):700-9, 2011.

A Novel Human Polycomb Binding Site Acts As a Functional Polycomb Response Element in Drosophila.
Cuddapah S, Roh TY, Cui K, Jose CC, Fuller MT, Zhao K, Chen X.
PLoS One. 7(5):e36365, 2012.

Genomic Profiling of HMGN1 Reveals an Association with Active Regulatory Regions.
Cuddapah S, Schones DE, Cui K, Roh TY, Barski A, Wei G, Rochman M, Bustin M, Zhao K.
Mol Cell Biol., 31(4):700-9, 2011.

Epigenomics of T cell activation, differentiation, and memory.
Cuddapah S, Barski A, Zhao K.
Curr Opin Immunol., 22(3):341-7, 2010.

Global Analysis of the Insulator Binding Protein CTCF Reveals Demarcation of Active and Repressive Chromatin Domains.
Cuddapah S, Jothi R, Schones DE, Roh TY, Cui K, Zhao K.
Genome Res., 19(1), 24-32 2009.

Genome-Wide Identification of In vivo Protein-DNA Binding Sites from Chip-Seq Data.
Jothi R, Cuddapah S, Barski A, Cui K, Zhao K.
Nucleic Acids Res., 36(16), 5221-31, 2008.

Dynamic regulation of nucleosome positioning in the human genome.
Schones DE, Cui K, Cuddapah S, Roh TY, Barski A, Wang Z, Wei G, Zhao K.
Cell. 132(5), 887-98, 2008.

High-Resolution Profiling of Histone Methylations in the Human Genome.
Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, Wang Z, Wei G, Chepelev I, Zhao K.
Cell. 129(4), 823-37, 2007.

See All Publications

Lab Members:

Cynthia Jose
Lakshmanan Jagannathan

Kathrin Kiok
Ramya Krishna Mallela