Rajan Jain, MD

faculty photo
Assistant Professor of Medicine
Department: Medicine
Graduate Group Affiliations

Contact information
09-102 Smilow Translational Research Building
3400 Civic Center Blvd
Philadelphia, PA 19104
Office: 215-746-5732
Lab: 215-573-3011
BA (Molecular and Cellular Biology)
University of California, Berkeley, 2001.
New York University School of Medicine, 2005.
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Description of Research Expertise

Research Interests: We are interested in how genome organization shapes organogenesis.

Keywords: Nuclear architecture, gene regulation, chromatin, epigenetics, 3D genome organization, heart development, stem cell biology

Research Details:
Our overarching goal is to understand how cells establish and maintain their identity. We leverage classic models of stem cell biology and readily work across disciplines to dissect the underpinnings of how genome organization shapes cell identity and fate. We work on this because it is not well understood how gene programs are coordinately enacted, such as those that happen as a cell progressively restricts. In addition, the promise of cell-based regenerative therapies requires the efficient generation of cells and tissues. We hope our studies will help add to the foundation for these efforts. Some of our efforts on cardiac progenitor lineage restriction and thus we are interested in the implications of our work in understanding congenital heart disease and adult cardiac diseases.

The higher-order mechanisms that control cell fate are relatively poorly understood. It has become apparent that the genome is folded and organized in a stereotypical manner in three-dimensional space. We are interested in understanding how the organization of the genome in 3D space establishes and maintains cell identity. Our team focuses on the central hypothesis that proper genome folding and dynamic spatial organization of the genome in the nucleus underlies establishment and maintenance of cellular identity. We believe that decoding the rules that instruct genome organization and lamina-chromatin interactions will inform how this is achieved.

Lab Personnel:
Rajan Jain
Bailey Koch Bojaland
Gwang Eom
Ashley Karnay
Wonho Kim
Ricardo Linares-Saldana
Parisha Shah
Qiaohong Wang

Selected Publications

Poleshko A*, Shah PP*, Gupta M*, Babu A, Morley MP, Manderfield LJ, Ifkovits JL, Calderon D, Aghajanian H, Sierra-Pagán JE, Sun Z, Wang Q, Li L, Dubois NC, Morrisey EE, Lazar MA, Smith CL, Epstein JA*, Jain R*: Genome-Nuclear Lamina Interactions Regulate Cardiac Stem Cell Lineage Restriction. Cell 171(3): 573-587 e14, Oct 2017.

Aghajanian H, Cho YK, Rizer NW, Wang Q, Li L, Degenhardt K, Jain R: Pdgfralpha functions in endothelial-derived cells to regulate neural crest cells and the development of the great arteries. Dis Model Mech 10(9): 1101-1108, Sept 2017.

Ramjee V, Li D, Manderfield LJ, Liu F, Engleka KA, Aghajanian H, Rodell CB, Lu W, Ho V, Wang T, Li L, Singh A, Cibi DM, Burdick JA, Singh MK*, Jain R*, Epstein JA*: Epicardial YAP/TAZ orchestrate an immunosuppressive response following myocardial infarction. J Clin Invest 127(3): 899-911, March 2017 Notes: *co-corresponding author.

Kook H, Seo SB, Jain R: EZ Switch From EZH2 to EZH1: Histone Methylation Opens a Window of Cardiac Regeneration. Circ Res 121(2): 91-94, July 2017.

Loh KM, Chen A, Koh PW, Deng TZ, Sinha R, Tsai JM, Barkal AA, Shen KY, Jain R, Morganti RM, Shyh-Chang N, Fernhoff NB, George BM, Wernig G, Salomon REA, Chen Z, Vogel H, Epstein JA, Kundaje A, Talbot WS, Beachy PA, Ang LT, Weissman IL: Mapping the Pairwise Choices Leading from Pluripotency to Human Bone, Heart, and Other Mesoderm Cell Types. Cell 166(2): 451-467, Jul 2016.

Jain R*, Li D*, Gupta M, Manderfield LJ, Ifkovits JL, Wang Q, Liu F, Liu Y, Poleshko A, Padmanabhan A, Raum JC, Li L, Morrisey EE, Lu MM, Won KJ, Epstein JA: Integration of Bmp and Wnt signaling by Hopx specifies commitment of cardiomyoblasts. Science 348(6242): aaa6071, Jun 2015.

Jain R*, Barkauskas CE*, Takeda N, Bowie EJ, Aghajanian H, Wang Q, Padmanabhan A, Manderfield LJ, Gupta M, Li D, Li L, Trivedi CM, Hogan BL, Epstein JA: Plasticity of Hopx(+) type I alveolar cells to regenerate type II cells in the lung. Nat Commun 6: 6727, April 2015.

Takeda N*, Jain R*, Leboeuf MR, Padmanabhan A, Wang Q, Li L, Lu MM, Millar SE, Epstein JA: Hopx expression defines a subset of multipotent hair follicle stem cells and a progenitor population primed to give rise to K6+ niche cells. Development 140(8): 1655-64, Apr 2013 Notes: co-first author.

Takeda N*, Jain R, LeBoeuf MR, Wang Q, Lu MM, Epstein JA.: Interconversion between intestinal stem cell populations in distinct niches. Science 334(6061): 1420-4, Dec 2011 Notes: *co-first author.

Jain R, Engleka KA, Rentschler SL, Manderfield LJ, Li L, Yuan L, Epstein JA: Cardiac neural crest orchestrates remodeling and functional maturation of mouse semilunar valves. J Clin Invest 121(1): 422-30, Jan 2011.

High FA*, Jain R*, Stoller JZ, Antonucci NB, Lu MM, Loomes KM, Kaestner KH, Pear WS, Epstein JA: Murine Jagged1/Notch signaling in the second heart field orchestrates Fgf8 expression and tissue-tissue interactions during outflow tract development. J Clin Invest 119(7): 1986-96, Jul 2009 Notes: *co-first author.

Ladurner AG, Inouye C, Jain R, Tjian R: Bromodomains mediate an acetyl-histone encoded antisilencing function at heterochromatin boundaries. Mol Cell 11(2): 365-76, Feb 2003.

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Last updated: 09/24/2021
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