Jing Chen, PhD

Biography & Affiliation Education Publications

Assistant Professor, UC Department of PediatricsUC Department of Biomedical Informatics

Biography & Affiliation

Biography

Dr. Chen earned a PhD in Bioinformatics from the University of Cincinnati. He did postdoctoral research at the University of Cincinnati’s Department of Environmental Health and Cincinnati Children’s Hospital Medical Center's Department of Biomedical Informatics. Dr. Chen has worked as a computational biologist at GlaxoSmithKline, the world's sixth largest pharmaceutical company.

Under the mentorship of Drs. Bruce Aronow and Anil Jegga, Chen created the ToppGene suite of web applications as part of his PhD thesis. As a research scientist at the University of Cincinnati, he proposed a statistical framework to connect transcription factors with diseases and drugs based on ChIP-seq and mRNA expression. Recently he developed GDDP, a novel phenotype-disease matching method for rare genetic diseases. He has built numerous analytical pipelines for large-scale genomic data and was involved in the development of bioinformatics infrastructure and methodology in the NIH-funded LINCS program.

Clinical Interests

Rare genetic disease; clinical NGS

Research Interests

Phenomics for common and rare diseases; genetics of preterm birth; genomics of pediatric cancers.

Academic Affiliation

Assistant Professor, UC Department of PediatricsUC Department of Biomedical Informatics

Department

Biomedical Informatics

Education

BS: National University of Singapore, Singapore, 2002.

PhD: University of Cincinnati, Cincinnati, OH, 2008.

Publications

Chen J, Bardes EE, Aronow BJ, Jegga AG. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. NAR. 2009;37:W305-W311.

Chen J, Aronow BJ, Jegga AG. Disease candidate gene identification and prioritization using protein interaction networks. BMC bioinformatics. 2009;10(1):73.

Chen J, Xu H, Aronow BJ, Jegga AG. Improved human disease candidate gene prioritization using mouse phenotype. BMC bioinformatics. 2007;8(1):392.

Chen J, Xu H, Jegga A, Zhang K, White PS, Zhang G. Novel phenotype–disease matching tool for rare genetic diseases. Genetics in Medicine. 2018.

Chen J, Gálvez-Peralta M, Zhang X, Deng J, Liu Z, Nebert DW. In utero gene expression in the Slc39a8 (neo/neo) knockdown mouse. Scientific reports. 2018;8(1):10703.

Chen J, Hu Z, Phatak M, Reichard J, Freudenberg JM, Sivaganesan S, Medvedovic M. Genome-wide signatures of transcription factor activity: connecting transcription factors, disease, and small molecules. PLoS computational biology. 2013;9(9):e1003198.