Hong Ji, PhD

Assistant Professor, UC Department of Pediatrics

Phone 513-803-5055

Fax 513-636-1657

Email hong.ji@cchmc.org

Epigenetic plasticity of development and disease; asthma epigenetics; genome-wide and locus specific DNA methylation analysis; epigenetic regulation of gene expression

Visit the Ji Lab.

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.

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, Zhang X, Oh S, Mayhew CN, Ulm A, Somineni HK, Ericksen M, Wells JM, Khurana Hershey GK. Dynamic transcriptional and epigenomic reprogramming from pediatric nasal epithelial cells to induced pluripotent stem cells. J Allergy Clin Immunol. 2015 Jan;135(1):236-44.

Zhang X, Ulm A, Somineni HK, Oh S, Weirauch MT, Zhang HX, Chen X, Lehn MA, Janssen EM, Ji H. DNA methylation dynamics during ex vivo differentiation and maturation of human dendritic cells. Epigenetics Chromatin. 2014 Aug 20;7:21. 

Abdel-Hameed EA, Ji H, Sherman KE, Shata MT. Epigenetic Modification of FOXP3 in Patients with Chronic HIV Infection. J Acquir Immune Defic Syndr.  2014 Jan 1;65(1):19-26.

Brunst KJ, Leung YK, Ryan PH, Khurana Hershey GK, Levin L, Ji H, Lemasters GK, Ho SM. Forkhead box protein 3 (FOXP3) hypermethylation is associated with diesel exhaust exposure and risk for childhood asthma. J Allergy Clin Immunol. 2013 Feb;131(2):592-4.

Ji H, Khurana Hershey GK. Genetic and epigenetic influence on the response to environmental particulate matter. J Allergy Clin Immunol.  2012 Jan;129(1):33-41.

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, Feinberg AP. Comprehensive methylome map of lineage commitment from hematopoietic progenitors. Nature. 2010 Sep 16:467(7313):338-42.

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, Daley GQ. Epigenetic memory in induced pluripotent stem cells. Nature. 2010 Sep 16;467(7313):285–90.

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, 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, 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, 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.