Developmental Epigenetics

The Developmental Epigenetics Interest Group addresses questions regarding epigenetic gene regulation in development and disease. For example, how does epigenetic gene regulation control lineage determination and cell identity? Additionally, how does disease and the environment impact epigenetic gene regulation? We use a variety of model systems, from mouse to plants, as well as in vitro systems in our studies. We also pursue genetic and biochemical studies that focus on the epigenetic machinery. To address these questions at the single cell level, in tissues or in organisms, we use state-of-the art tools and computation.

Director of Developmental Epigenetics Interest Group

Marisa Bartolomei, Ph.D. Perelman Professor of Cell and Developmental Biology; Co-Director of Epigenetics Institute

Interest Group Members

Montserrat Anguera, Ph.D. Associate Professor, Department of Biomedical Sciences, University of Pennsylvania School of Veterinary Medicine
Roberto Bonasio, Ph.D. Associate Professor of Cell and Developmental Biology
Nancy M. Bonini, Ph.D. Florence R.C. Murray Professor of Biology
Colin Conine, Ph.D. Assistant Professor of Genetics and Pediatrics
Jonathan A. Epstein, M.D. Executive Vice Dean and Chief Scientific Officer, William Wikoff Smith Professor of Medicine
Elizabeth Heller, Ph.D. Assistant Professor of Pharmacology
Rajan Jain, Ph.D. Assistant Professor of Medicine and Cell & Developmental Biology
Klaus Kaestner, Ph.D., M.S. Thomas and Evelyn Suor Butterworth Professor in Genetics Director, Center of Excellence in Type 1 Diabetes Associate Director, Penn Diabetes Research Center Associate Director, Penn Center for Molecular Studies in Digestive and Liver Diseases Director, Next Generation Sequencing Center
Jennifer M. Kalish, M.D., Ph.D. Assistant Professor of Pediatrics (CHOP)
Mia Levine, Ph.D. Assistant Professor of Biology
Christopher Pierce, Ph.D., M.S. Professor of Neuroscience in Psychiatry
Arjun Raj, Ph.D. Assistant Professor Bioengineering
Golnaz Vahedi, Ph.D. Assistant Professor of Genetics, Member of Institute for Immunology
Doris Wagner, Ph.D. Robert I. Williams Term Professor of Biology
E. John Wherry, Ph.D. Richard and Barbara Schiffrin President's Distinguished Professor
Kenneth S. Zaret, Ph.D. Joseph Leidy Professor; Director of the Institute for Regenerative Medicine
Zhaolan (Joe) Zhou, Ph.D. Associate Professor of Genetics


Mitotic transcription and waves of gene reactivation during mitotic exit. Katherine C. Palozola, Greg, Donahue, Hong Liu, Gregory R Grant, Justin S. Becker, Allison Cote, Hongtao Yu, Arjun Raj, Kenneth S. Zaret. Published Online 12 Sep 2017 full access. doi: 10.1126/science.aal4671

Cis and trans determinants of epigenetic silencing by Polycomb repressive complex 2 in Arabidopsis. Xiao J, Jin R, Yu X, Shen M, Wagner JD, Pai A, Song C, Zhuang M, Klasfeld S, He C, Santos AM, Helliwell C, Pruneda-Paz JL, Kay SA, Lin X, Cui S, Garcia MF, Clarenz O, Goodrich J, Zhang X, Austin RS, Bonasio R, Wagner D.

The Neuropeptide Corazonin Controls Social Behavior and Caste Identity in Ants.  Gospocic J, Shields EJ, Glastad KM, Lin Y, Penick CA, Yan H, Mikheyev AS, Linksvayer TA, Garcia BA, Berger SL, Liebig J, Reinberg D, Bonasio R.  Cell. 2017 Aug 10;170(4):748-759.e12. doi: 10.1016/j.cell.2017.07.014

Elevating expression of MeCP2 T158M rescues DNA binding and Rett syndrome-like phenotypes. Lamonica JM, Kwon DY, Goffin D, Fenik P, Johnson BS, Cui Y, Guo H, Veasey S, and Zhou ZJournal of Clinical Investigation 127(5): 1889-1904,2017.

Epigenetic regulation of intestinal stem cells by Tet 1-mediated DNA hydroxymethylation. Kim R, Sheaffer KL, Choi I, Won KJ, Kaestner KH. Genes Dev. 2016

Visualizing allele-specific expression in single cells reveals epigenetic mosaicism in an H19 loss of imprinting mutant. Ginard, P., Kalish, J.M., Jiang, C.L., Yu, A.C., Bartolomei, M.S.* and A. Raj*. (2016). Genes and Development, 30:567-578