Victor Jin, Ph.D.
The research in my lab is focused on the following aspects:
- Developing computational and genomics approaches for the identification of genomic regulatory elements (networks) at one-dimensional (1D) and three-dimensional (3D) manners, and epigenetic-regulated splicing variants from cancer epi-/genomic and transcriptomic data generated from the cutting-edge next generation sequencing (NGS) technologies (omics-seq) such as strand-specific pair-end ChIP-exo (ChIP-ePENS), ChIP-seq, MBDCap-seq, TCC (Hi-C), DRIP-seq, RNA-seq and miRNA-seq;
- Functionally and mechanistically characterizing the computational predictions and providing the meaningful biological interpretations using novel techniques such as siRNA, 3C/ChIP/RT-qPCR, Western Blotting, 3D-FISH and CRISPR/Cas9;
- Developing computational pipelines to aid molecular biomarker discovery and examining the significance of identified gene signatures in patients survival and prognostic information. We are working on various cancer models such as breast, prostate, pancreatic cancers, and leukemia.
Cui R, Meng W, Sun HL, Kim T, Ye Z, Fassan M, Jeon YJ, Li B, Vicentini C, Peng Y, Lee TJ, Luo Z, Liu L, Xu D, Tili E, Jin V.X., Middleton J, Chakravarti A, Lautenschlaeger T, Croce CM. MicroRNA-224 promotes tumor progression in nonsmall cell lung cancer. Proc Natl Acad Sci U S A. 2015 Jul 17. pii: 201502068. [Epub ahead of print]
Ruan J, Jin V.X., Huang Y, Xu H, Edwards JS, Chen Y, Zhao Z. Education, collaboration, and innovation: intelligent biology and medicine in the era of big data. BMC Genomics. 2015;16 Suppl 7:S1.
He H, Li W, Liyanarachchi S, Srinivas M, Wang Y, Akagi K, Wang Y, Wu D, Wang Q, Jin V.X., Symer DE, Shen R, Phay J, Nagy R, de la Chapelle A. Multiple functional variants in long-range enhancer elements contribute to the risk of SNP rs965513 in thyroid cancer. Proc Natl Acad Sci U S A. 2015 May 12;112(19):6128-33.
Wang J, Ye Z, Huang TH, Shi H, Jin V.X.. A survey of computational methods in transcriptome-wide alternative splicing analysis. Biomol Concepts. 2015 Mar;6(1):59-66.
Jadhav RR, Ye Z, Huang RL, Liu J, Hsu PY, Huang YW, Rangel LB, Lai HC, Roa JC, Kirma NB, Huang TH, Jin V.X.. Genome-wide DNA methylation analysis reveals estrogen-mediated epigenetic repression of metallothionein-1 gene cluster in breast cancer.Clin Epigenetics. 2015 Feb 24;7(1):13.
Chen Z, Lan X, Thomas-Ahner JM, Wu D, Liu X, Ye Z, Wang L, Sunkel B, Grenade C, Chen J, Zynger DL, Yan PS, Huang J, Nephew KP, Huang TH, Lin S, Clinton SK, Li W, Jin V.X., Wang Q. Agonist and antagonist switch DNA motifs recognized by human androgen receptor in prostate cancer. EMBO J. 2015 Feb 12;34(4):502-16
Wu D, Sunkel B, Chen Z, Liu X, Ye Z, Li Q, Grenade C, Ke J, Zhang C, Chen H, Nephew KP, Huang TH, Liu Z,Jin V.X., Wang Q. Three-tiered role of the pioneer factor GATA2 in promoting androgen-dependent gene expression in prostate cancer. Nucleic Acids Res. 2014 Apr;42(6):3607-22.
Ye Z, Chen Z, Lan X, Hara S, Sunkel B, Huang TH, Elnitski L, Wang Q, Jin V.X.. Computational analysis reveals a correlation of exon-skipping events with splicing, transcription and epigenetic factors. Nucleic Acids Res. 2014 Mar;42(5):2856-69.
Bonneville, R. and Jin, V.X.* “A Hidden Markov Model to Identify Combinatorial Epigenetic Regulation Patterns for Estrogen Receptor α Target Genes.” Bioinformatics, 29, 22-28 (2013).
Wang, J.#,*, Lan, X.#, Hsu, P.-Y., Huang, K., Parvin, J., Huang, T.H.-M., and Jin, V.X.* “Genome-wide analysis uncovers high frequency and strong differential chromosomal interactions and their associated epigenetic patterns in E2-mediated gene regulation.” BMC Genomics, 14:70 (2013).