Chunliang Li, PhD
Chunliang Li, PhD

Chunliang Li, PhD

Assistant Member, St. Jude Faculty



BS – Central China Normal University
PhD – Shanghai Institute of Biological Sciences, Chinese Academy of Sciences

Research Interests

My primary research interest is to understand the molecular mechanism controlling essential genes through epigenetic regulation in tumor development with particular focus on the following aspects of

  1. Understanding how the tumor suppressors/oncogenes are regulated in a fine-tune manner by adjacent  enhancer elements through long range chromatin interactions in combination with genomics and genome editing tools as Capture-C, CRISPR, TALEN, ChIP-seq, STARR-seq and ATAC-seq et al. ;
  2. Using versatile genome editing (TALEN and CRISPR/Cas9) systems to build up in vivo mouse models with compound mutant genotypes and as an approach for identifying and characterizing regulators of early organismal development and tumor initiation and progression.

Selected Publications

Mondal B, Jin H, Kallappagoudar S, Sedkov Y, Martinez T, Sentmanat MF, Poet GJ, Li C, Fan Y, Pruett-Miller SM, Herz HM. The histone deacetylase complex MiDAC regulates a neurodevelopmental gene expression program to control neurite outgrowth. Elife. Apr 16, 2020;9. pii: e57519. doi: 10.7554/eLife.57519.

Zhang Y, Hyle J, Wright S, Shao Y, Zhao X, Zhang H, Li C. A cis-element within the ARF locus mediates repression of p16 INK4A expression via long-range chromatin interactions. Proc Natl Acad Sci U S A Dec 9, 2019. pii: 201909720. doi: 10.1073/pnas.1909720116. [Epub ahead of print] PMID 31818950

Vijayakrishnan J, Qian M, Studd JB, Yang W, Kinnersley B, Law PJ, Broderick P, Raetz EA, Allan J, Pui CH, Vora A, Evans WE, Moorman A, Yeoh A, Yang W, Li C, Bartram CR, Mullighan CG, Zimmerman M, Hunger SP, Schrappe M, Relling MV, Stanulla M, Loh ML, Houlston RS, Yang JJ. Identification of four novel associations for B-cell acute lymphoblastic leukaemia risk. Nat Commun Nov 25;10(1):5348, 2019. doi: 10.1038/s41467-019-13069-6. PMID 31767839 

Xu H, Zhao X, Bhojwani D, E S, Goodings C, Zhang H, Seibel NL, Yang W, Li C, Carroll WL, Evans WE, Yang JJ. ARID5B Influences Antimetabolite Drug Sensitivity and Prognosis of Acute Lymphoblastic Leukemia. Clin Cancer Res Oct 1, 2019. doi: 10.1158/1078-0432.CCR-19-0190. [Epub ahead of print] PMID 31573954

Hyle J, Zhang Y, Wright S, Xu B, Shao Y, Easton J, Tian L, Feng R, Xu P, Li C. Acute depletion of CTCF directly affects MYC regulation through loss of enhancer-promoter looping. Nucleic Acids Res  Jul 26;47(13):6699-6713, 2019. doi: 10.1093/nar/gkz462.

Wang H, Diaz AK, Shaw TI, Li Y, Niu M, Cho JH, Paugh BS, Zhang Y, Sifford J, Bai B, Wu Z, Tan H, Zhou S, Hover LD, Tillman HS, Shirinifard A, Thiagarajan S, Sablauer A, Pagala V, High AA, Wang X, Li C, Baker SJ, Peng J. Deep multiomics profiling of brain tumors identifies signaling networks downstream of cancer driver genes. Nat Commun Aug 16;10(1):3718, 2019. doi: 10.1038/s41467-019-11661-4.

Tian L, Shao Y, Nance S, Dang J, Xu B, Ma X, Li Y, Ju B, Dong L, Newman S, Zhou X, Schreiner P, Tseng E, Hon T, Ashby M, Li C, Easton J, Gruber TA, Zhang J. Long-read sequencing unveils IGH-DUX4 translocation into the silenced IGH allele in B-cell acute lymphoblastic leukemia. Nat Commun Jun 26;10(1):2789, 2019. doi: 10.1038/s41467-019-10637-8. PMID: 31243274

Hu D, Jablonowski C, Cheng PH, AlTahan A, Li C, Wang Y, Palmer L, Lan C, Sun B, Abu-Zaid A, Fan Y, Brimble M, Gamboa NT, Kumbhar RC, Yanishevski D, Miller KM, Kang G, Zambetti GP, Chen T, Yan Q, Davidoff AM, Yang J. KDM5A Regulates a Translational Program that Controls p53 Protein Expression. iScience Nov 30;9:84-100, 2018. doi: 10.1016/j.isci.2018.10.012. Epub 2018 Oct 17. PMID: 30388705

Caggia S, Chunduri H, Millena AC, Perkins JN, Venugopal SV, Vo BT, Li C, Tu Y, Khan SA. Novel role of Giα2 in cell migration: Downstream of PI3-kinase-AKT and Rac1 in prostate cancer cells. J Cell Physiol Aug 4, 2018. doi: 10.1002/jcp.26894. [Epub ahead of print] PMID: 30078221

Vo BT, Kwon JA, Li C, Finkelstein D, Xu B, Orr BA, Sherr CJ, Roussel MF. Mouse medulloblastoma driven by CRISPR activation of cellular Myc. Sci Rep Jun 7;8(1):8733, 2018. doi: 10.1038/s41598-018-24956-1. PMID: 29880921

Li Y, Guo X, Hu C, Du Y, Guo C, Di Wang, Zhao W, Huang G, Li C, Lu Q, Lai R, Xu T, Qi X. Type I IFN operates pyroptosis and necroptosis during multidrug-resistant A. baumannii infection. Cell Death Differ Jul;25(7):1304-1318, 2018. doi: 10.1038/s41418-017-0041-z. Epub 2018 Jan 19. PMID: 29352265

van Oosterwijk JG*, Li C*, Yang X, Opferman JT, Sherr CJ. Small mitochondrial Arf (smArf) protein corrects p53-independent developmental defects of Arf tumor suppressor-deficient mice. Proc Natl Acad Sci U S A 114(28):7420-7425, 2017. (*equal contribution) pii: 201707292 doi: 10.1073/pnas.1707292114 [Epub ahead of print] PMID 28652370

Hu S, Qian M, Zhang H, Guo Y, Yang J, Zhao X, He H, Lu J, Pan J, Chang M, Du G, Lin TN, Kham SK, Quah TC, Ariffin H, Tan AM, Cheng Y, Li C, Yeoh AE, Pui CH, Skanderup AJ, Yang JJ. Whole-genome non-coding sequence analysis in T-cell acute lymphoblastic leukemia identifies oncogene enhancer mutations. Blood 129(24):3264-3268, 2017.

Vo BT*, Li C*, Morgan MA, Theurillat I, Finkelstein D, Wright S, Hyle J, Smith SM, Fan Y, Wang YD, Wu G, Orr BA, Northcott PA, Shilatifard A, Sherr CJ, Roussel MF. Inactivation of Ezh2 Upregulates Gfi1 and Drives Aggressive Myc-Driven Group 3 Medulloblastoma. Cell Rep 18(12):2907-2917, 2017. *Equal contributors

Zhu Z, Li C, Zeng Y, Ding J, Qu Z, Gu J, Ge L, Tang F, Huang X, Zhou C, Wang P, Zheng D, Jin Y. PHB Associates with the HIRA Complex to Control an Epigenetic-Metabolic Circuit in Human ESCs. Cell Stem Cell Nov 17, 2016. Epub ahead of print. PMID: 27939217

Traxler EA, Yao Y, Wang YD, Woodard KJ, Kurita R, Nakamura Y, Hughes JR, Hardison RC, Blobel GA, Li C, Weiss MJ. A genome-editing strategy to treat beta-hemoglobinopathies that recapitulates a mutation associated with a benign genetic condition. Nat Med 22(9):987-990, 2016.

Li C, Qi R, Singleterry R, Hyle J, Balch A, Li X, Sublett J, Berns H, Valentine M, Valentine V, Sherr CJ. Simultaneous gene editing by injection of mRNAs encoding transcription activator-like effector nucleases (TALENS) into Mouse Zygotes. Mol Cell Biol 34(9):1649-58, 2014. doi: 10.1128/MCB.00023-14. Epub 2014 Feb 24. Cover and spotlight commentary.

Li C, Finkelstein D, Sherr CJ. Arf tumor suppressor and miR-205 regulate cell adhesion and formation of extraembryonic endoderm from pluripotent stem cells. Proc Natl Acad Sci USA 110(12):E1112-1121, 2013.

Ma Y, Li C, Gu J, Tang F, Li C, Li P, Ping P, Yang S, Li Z, Jin Y. Aberrant gene expression profiles in pluripotent stem cells induced from fibroblasts of a Klinefelter syndrome patient.J Biol Chem 287(46):38970-38979, 2012.

Ma Y*, Gu J*, Li C, Wei X, Tang F, Shi G, Jiang J, Kuang Y, Li J, Wang Z, Xie X, Jin Y. Human foreskin fibroblast produces interleukin-6 to support derivation and self-renewal of mouse embryonic stem cells. Stem Cell Res Ther 3(4):29, 2012. *Equal contribution.

Amps K, et al. The International Stem Cell Initiative Group. Screening a large, ethnically diverse population of human embryonic stem cells identifies a chromosome 20 minimal amplicon that confers a growth advantage. Nat Biotechnol 29(12):1132-1144, 2011.

Li L, Sun L, Gao F, Yang Y, Li C, Gu J, Jiang J, Wei Z, Tang F, Yang A, Lu R, Kwon SW, Zhao Y, Li J, Jin Y. Stk40 links the pluripotency factor Oct4 to the Erk/MAPK pathway and controls extraembryonic endoderm differentiation. Proc Natl Acad Sci USA 107(4):1402-1407, 2010.

Li C, Yang Y, Lu X, Sun Y, Gu J, Feng Y, Jin Y. Efficient derivation of Chinese human embryonic stem cell lines from frozen embryos. In Vitro Cell Dev Biol Anim 46(3-4):186-191, 2010.

Fang H*, Yang Y*, Li C, Fu S, Yang Z, Jin G, Zhang J, Jin Y. Transcriptome analysis of early organogenesis in human embryos. Dev Cell 19(1):174-184, 2010. *Equal contribution.

Li C*, Yu H*, Ma Y, Jiang H, Jiang J, Gu J, Shi G, Yang Y, Li J, Jin Y. Germline-competent mouse-induced pluripotent stem cell lines generated on human fibroblasts without exogenous leukemia inhibitory factor. PloS ONE 4(8):e6724, 2009. *Equal contribution.

Li C*, Zhou J*, Shi G, Ma Y, Yang Y, Gu J, Yu H, Chen F, Jin Y. Pluripotency can be rapidly and efficiently induced in human amniotic fluid-derived cells. Hum Mol Genet 18(22):4340-4349, 2009. *Equal contribution.

Li C*, Yang Y*, Gu J, Jin Y. The unique molecular signature of undifferentiated rat embryonic stem-like cells and its comparison with the mouse and human. Cell Research 19:173-186, 2009. *Equal contribution.

Xu H, Wang W, Li C, Yang A, Wang B, Jin Y. WWP2 promotes degradation of transcription factor OCT4 through 26S proteasome in human pluripotent stem cells. Cell Research 19:561–573, 2009.

Shu R, Zhang F, Liu X-S, Li C, Wang L, Tai Y, Wu X, Yang X, Liao X, Gu M, Huang L, Wang Z. Target deletion of the cytoskeleton-associated protein palladin does not impair neurite outgrowth in mice.PLoS ONE 4(9):e6916, 2009.

Guan Y, Cui L, Gong Y, Xia C, Jing N, Wu Y, Li C, Jiang H, Zhong X, Wu X, Li W, Xu G. Transplantation of marrow stromal cells to rescue retinal cells in SI-induced retinal degeneration in rats (letter). Cell Research 18, S152-S152, 2008.

Hu Y, Hirasawa R, Hu J, Hata K, Li C, Jin Y, Chen T, Li E, Rigolet M, Viegas-Péquignot E, Sasaki H, Xu G. Regulation of DNA methylation activity through Dnmt3L promoter methylation by Dnmt3 enzymes in embryonic development. Hum Mol Genet 17(17):2654-2664, 2008.

Sun B, Yang A, Feng Y, Sun Y, Zhu Y, Zhang Y, Jiang H, Li C, Gao F, Zhang Z, Wang W, Kong X, Jin G, Fu S, Jin Y. Temporal and parental-specific expression of imprinted genes in a newly derived Chinese human embryonic stem cell line and embryoid bodies. Hum Mol Genet 15(1):65-75, 2006.

Du C, Zhang Q, Li C, Miao D, Gui J. Induction of apoptosis in a carp leucocyte cell line infected with turbot (Scophthalmus maximus L.) rhabdovirus. Virus Research 101:119-126, 2004.

Last update: May 2020

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