27465-Wan, Jun

Jun Wan, PhD

Associate Professor of Medical & Molecular Genetics

HS 5013

Indianapolis, IN 46202
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Dr. Jun Wan is a tenured Associate Professor in the Department of Medical and Molecular Genetics (MMGE), Indiana University School of Medicine. He is director of Collaborative Core for Cancer Bioinformatics (C3B) shared by Indiana University Simon Comprehensive Cancer Center (IUSCCC) and NCI-designated cancer center, Purdue University Center for Cancer Research (PUCCR). Dr. Wan got his Ph.D. degree in Physics from Queen's University, Kingston Ontario, Canada, followed by postdoctoral training in bioinformatics at Johns Hopkins University School of Medicine. Prior to moving to Indiana University, Dr. Wan was a research faculty at Johns Hopkins University. He has authored or co-authored over 110 research papers published in peer-reviewed journals, such as Cell, Nature Nanotechnology, Nature Cell Biology, Nature Biomedical Engineering, Science Immunology, Nucleic Acids Research, JCI, Genome Biology, Molecular Cell, Nature Communications, PNAS, eLife, and Bioinformatics among others. More detailed can be found on https://wanbioinfo.github.io/Lab.

Key Publications

J Wan, Y Su, Q Song, B Tung, O Oyinlade, S Liu, M Ying, G Ming, H Song, J Qian, H Zhu, S Xia (2017) Methylated cis-regulatory elements mediate KLF4-dependent gene transactivation and cell migration. eLife 2017/5/29, e20068. PMC5466421.

O Oyinlade, S Wei, K Kammers, S Liu, S Wang, D Ma, Z Huang, J Qian, H Zhu, J Wan (co-corresponding author), S Xia (2018) Analysis of KLF4 regulated genes in cancer cells reveals a role of DNA methylation in promoter-enhancer interactions. Epigenetics 13 (7), 751. PMC6224223.

J Xu, Y Liu, Y Li, H Wang, S Stewart, K Van der Jeught, P Agarwal, Y Zhang, S Liu, G Zhao, J Wan, X Lu, X He (2019) Precise targeting of POLR2A as a therapeutic strategy for human triple negative breast cancer. Nature Nanotechnology 14 (4), 388. PMC6449187.

J Liu, S Liu, H Gao, L Han, X Chu, Y Sheng, W Shou, Y Wang, Y Liu, J Wan(co-corresponding author), L Yang (2020) Genome-wide studies reveal the essential and opposite roles of ARID1A in controlling human cardiogenesis and neurogenesis from pluripotent stem cells. Genome Biology 21 (1), 169.

E Beketova, S Fang, J Owens, S Liu, X Chen, Q Zhang, A Asberry, X Deng, J Malola, J Huang, C Li, R Pili, B Elzey, T Ratliff, J Wan(co-corresponding author), CD Hu (2020) Protein arginine methyltransferase 5 promotes androgen receptor transcription in a pICln-dependent manner in castration-resistant prostate cancer. Cancer Research 80 (22), 4904.

S Fang, K Li, JK Shen, S Liu, J LIu, L Yang, CD Hu, J Wan (2021) GESS: A database of Global Evaluation of SARS-CoV-2/hCoV-19 Sequences. Nucleic Acids Research D1, D706.

S Fang, S Liu, J Shen, AZ Lu, AKY Wang, Y Zhang, K Li, J Liu, L Yang, CD Hu, J Wan (2021) Updated SARS-CoV-2 Single Nucleotide Variants and Mortality Association. Journal of Medical Virology (selected as cover image) 93 (12), 6525.

Y Chen, S Fang, Q Ding, R Jiang, J He, Q Wang, Y Jin, X Huang, S Liu, ML Capitano, T Trinh, Y Teng, Q Meng, J Wan(co-corresponding author), HE Broxmeyer, B Guo (2021) ADGRG1 enriches for functional human hematopoietic stem cells following ex vivo expansion-induced mitochondrial oxidative stress. Journal of Clincal Investigation 131 (20), e148329. 

Titles & Appointments

  • Associate Professor of Medical & Molecular Genetics
  • Adjunct Associate Professor, School of Informatics and Computing
  • Director of Collaborative Core for Cancer Bioinformatics (C3B) shared by NCI-comprehensive cancer center, Indiana University Simon Comprehensive Caner Center, and Purdue University Center for Cancer Research
  • Education
    2011 POSTDOC Johns Hopkins University School of Medicine
    2006 PhD Queen's University
    2001 MS Fudan University
    1991 BS Shanghai Jiao Tong University
  • Research

    Current research interests in Dr. Jun Wan's lab cover broad topics of bioinformatics and computational systems biology, particularly focused on (1) deciphering genetic and epigenetic codes regulating gene expression, (2) exploring master regulators and their interactions for gene reprogramming, (3) understanding dynamics of gene regulatory networks, (4) investigating interactions between small molecules and proteins/DNA/RNA, and (5) using machine learning to predict gene regulation and model binding activities of small molecules. Since 2007, Dr. Wan has been conducting studies in gene regulatory mechanisms from multiple dimensions, including transcription factor regulation, DNA methylation, alternative splicing, microRNA regulation, whole-genome nucleosome organization, histone modifications, and chromatin organizations. His lab also works on public domain data to integrate a wide variety of ‘-omics’ data sets to achieve comprehensive patterns of gene regulatory networks, while developing diverse cutting-edge analyses on high-throughput data and next generation sequencing (NGS) data, such as RNA-Seq and ATAC-seq at both bulk and single cell level, 10X Multiome, Spatial transcriptomics, ChIP-Seq, CUT&RUN, Whole Genome Bisulfite Sequencing (WGBS), Whole genome/exome sequencing, and CRISPR/Cas9 among others. More detailed can be found on his website: https://wanbioinfo.github.io/Lab.

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