Epigenetic plasticity of development and disease; asthma epigenetics; genome-wide and locus specific DNA methylation analysis; epigenetic regulation of gene expression
During her postdoc training, Hong Ji, PhD, applied microarray approaches to study DNA methylation in a genome-wide scale and its role in regulating gene expression. Dr. Ji identified the methylome maps of hematopoietic progenitor cells and demonstrated the dynamic methylation changes during myeloid and lymphoid commitment in hematopoiesis, evocative of Waddington’s illustration of epigenetic landscape in development. The methylome maps she generated successfully assessed the lineage memory of induced programmed stem cells (iPS) derived from blood cells, which provides a valuable cool to evaluate to what extent iPS cells are reprogrammed compared to ES cells. In collaboration with biostatisticians, Dr. Ji provided a novel web platform with which the methylation status of any genomic locus of interest can be easily queried to generate output methylation plots, greatly facilitates the general accessibility of these datasets and identification of novel regulators of hematopoiesis. Her findings also explained the therapeutic specificity of DNA demethylating drug treatment of myelodysplasia, in which malignant cells arrested in early development may be induced to differentiate by DNA demethylation.
Education and Training
BS: University of Science and Technology of China, China, 2002.
PhD: Vanderbilt University, Nashville, TN, 2007.
Fellowship: Johns Hopkins School of Medicine, MD, 2008-2011.
View PubMed Publications
Ji H, Ehrlich LIR, Seita J, Murakami P, Doi A, Lindau P, Lee H, Aryee MJ, Irizarry RA, Kim K, Rossi DJ, Inlay MA, Serwold T, Karsunky H, Ho L, Daley GQ, Weissman IL and Feinberg AP. A comprehensive methylome map of lineage commitment from hematopoietic progenitors. Nature. 2010 Sep;467(7313):338-342.
Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee M J, Ji H., Ehrlich LIR, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, Mckinney-Freeman S, Naveiras O, Yoon T, Irizarry RA, Hanna J, Jaenisch R, Weissleder R, Orkin S, Weissman I L, Feinberg AP and Daley GQ. Epigenetic memory in induced pluripotent stem cells. Nature. 2010 Sep;467:285-290.
Irizarry RA, Ladd-Acosta C, Wen B, Wu Z, Montano C, Onyango P, Cui H, Gabo K, Rongione M, Webster M, Ji H, Potash JB, Sabunciyan S and Feinberg AP. The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores. Nat Genet. 2009 Feb;41(2):178-86.
Ji H, Adkins CJ, Cartwright BR and Friedman KL. Yeast Est2p affects telomere length by influencing association of Rap1p with telomeric chromatin. Mol Cell Biol. 2008 Apr;28(7):2380-90.
Ji H, Platts MH, Dharamasi L and Friedman KL. Regulation of Telomere Length by an N-terminal Region of the Yeast Telomerase Reverse Transcriptase. Mol Cell Biol. 2005 Oct;25(20):9103-14.