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Kaifu Chen, PhD

Associate Professor of Cardiovascular Sciences, Academic Institute
Associate Member, Research Institute
Director, Center for Bioinformatics and Computational Biology
Houston Methodist
Weill Cornell Medical College

Machine learning uncovers cell identity regulator by histone code
Xia, B, Zhao, D, Wang, G, Zhang, M, Lv, J, Tomoiaga, AS, Li, Y, Wang, X, Meng, S, Cooke, JP, Cao, Q, Zhang, L & Chen, K 2020, Nature Communications, vol. 11, no. 1, 2696.

TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcription
Wang, G, Meng, Q, Xia, B, Zhang, S, Lv, J, Zhao, D, Li, Y, Wang, X, Zhang, L, Cooke, JP, Cao, Q & Chen, K 2020, Genome Biology, vol. 21, no. 1, 84.

BMI1 is directly regulated by androgen receptor to promote castration-resistance in prostate cancer
Zhu, S, Zhao, D, Li, C, Li, Q, Jiang, W, Liu, Q, Wang, R, Fazli, L, Li, Y, Zhang, L, Yi, Y, Meng, Q, Wang, W, Wang, G, Zhang, M, Zu, X, Zhao, W, Deng, T, Yu, J, Dong, X, Chen, K & Cao, Q 2020, Oncogene, vol. 39, no. 1, pp. 17-29.

Nuclear S-nitrosylation defines an optimal zone for inducing pluripotency
Chanda, PK, Meng, S, Lee, J, Leung, HE, Chen, K & Cooke, JP 2019, Circulation, vol. 140, no. 13, pp. 1081-1099.

Polycomb group proteins EZH2 and EED directly regulate androgen receptor in advanced prostate cancer
Liu, Q, Wang, G, Li, Q, Jiang, W, Kim, JS, Wang, R, Zhu, S, Wang, X, Yan, L, Yi, Y, Zhang, L, Meng, Q, Li, C, Zhao, D, Qiao, Y, Li, Y, Gursel, DB, Chinnaiyan, AM, Chen, K & Cao, Q 2019, , International Journal of Cancer, vol. 145, no. 2, pp. 415-426.

AIBP-mediated cholesterol efflux instructs hematopoietic stem and progenitor cell fate
Gu, Q, Yang, X, Lv, J, Zhang, J, Xia, B, Kim, JD, Wang, R, Xiong, F, Meng, S, Clements, TP, Tandon, B, Wagner, DS, Diaz, MF, Wenzel, PL, Miller, YI, Traver, D, Cooke, JP, Li, W, Zon, LI, Chen, K, Bai, Y & Fang, L 2019, , Science, pp. eaav1749.

Roles of the HOXA10 gene during castrate-resistant prostate cancer progression
Long, Z, Li, Y, Gan, Y, Zhao, D, Wang, G, Xie, N, Lovnicki, JM, Fazli, L, Cao, Q, Chen, K & Dong, X 2019, , Endocrine-Related Cancer, vol. 26, no. 3, pp. 279-292.

Dna2 nuclease deficiency results in large and complex DNA insertions at chromosomal breaks
Yu, Y, Pham, N, Xia, B, Papusha, A, Wang, G, Yan, Z, Peng, G, Chen, K & Ira, G 2018, , Nature, vol. 564, no. 7735, pp. 287-290.

TBX20 Regulates Angiogenesis Through the Prokineticin 2-Prokineticin Receptor 1 Pathway
Meng, S, Gu, Q, Yang, X, Lv, J, Owusu, I, Matrone, G, Chen, K, Cooke, JP & Fang, L 2018, Circulation, vol. 138, no. 9, pp. 913-928.

Ssd1 and Gcn2 suppress global translation efficiency in replicatively aged yeast while their activation extends lifespan
Hu, Z, Xia, B, Postnikoff, SDL, Shen, ZJ, Tomoiaga, AS, Harkness, TA, Seol, JH, Li, W, Chen, K & Tyler, JK 2018, , eLife, vol. 7, e35551.

Homeobox oncogene activation by pan-cancer DNA hypermethylation
Su, J, Huang, YH, Cui, X, Wang, X, Zhang, X, Lei, Y, Xu, J, Lin, X, Chen, K, Lv, J, Goodell, MA & Li, W 2018, , Genome Biology, vol. 19, no. 1, 108.

OX40 Costimulation Inhibits Foxp3 Expression and Treg Induction via BATF3-Dependent and Independent Mechanisms
Zhang, X, Xiao, X, Lan, P, Li, J, Dou, Y, Chen, W, Ishii, N, Chen, S, Xia, B, Chen, K, Taparowsky, E & Li, XC 2018, , Cell Reports, vol. 24, no. 3, pp. 607-618.

HP1? promotes lung adenocarcinoma by downregulating the transcription-repressive regulators NCOR2 and ZBTB7A
Alam, H, Li, N, Dhar, SS, Wu, SJ, Lv, J, Chen, K, Flores, ER, Baseler, L & Lee, MG 2018, , Cancer research, vol. 78, no. 14, pp. 3834-3848.

3' UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk
Park, HJ, Ji, P, Kim, S, Xia, Z, Rodriguez, B, Li, L, Su, J, Chen, K, Masamha, CP, Baillat, D, Fontes-Garfias, CR, Shyu, AB, Neilson, JR, Wagner, EJ & Li, W 2018, , Nature Genetics, vol. 50, no. 6, pp. 783-789.

PAF-Myc-Controlled Cell Stemness Is Required for Intestinal Regeneration and Tumorigenesis
Kim, MJ, Xia, B, Suh, HN, Lee, SH, Jun, S, Lien, EM, Zhang, J, Chen, K & Park, JI 2018, , Developmental Cell, vol. 44, no. 5, pp. 582-596.e4.

BMI1 regulates androgen receptor in prostate cancer independently of the polycomb repressive complex 1
Zhu, S, Zhao, D, Yan, L, Jiang, W, Kim, JS, Gu, B, Liu, Q, Wang, R, Xia, B, Zhao, JC, Song, G, Mi, W, Wang, RF, Shi, X, Lam, HM, Dong, X, Yu, J, Chen, K & Cao, Q 2018, , Nature Communications, vol. 9, no. 1, 500.

MLL4 Is Required to Maintain Broad H3K4me3 Peaks and Super-Enhancers at Tumor Suppressor Genes
Dhar, SS, Zhao, D, Lin, T, Gu, B, Pal, K, Wu, SJ, Alam, H, Lv, J, Yun, K, Gopalakrishnan, V, Flores, ER, Northcott, PA, Rajaram, V, Li, W, Shilatifard, A, Sillitoe, RV, Chen, K & Lee, MG 2018, , Molecular Cell, vol. 70, no. 5, pp. 825-841.e6.

Sparse conserved under-methylated CpGs are associated with high-order chromatin structure
Lin, X, Su, J, Chen, K, Rodriguez, B & Li, W 2017, , Genome Biology, vol. 18, no. 1, 163.

Lmo2 (LIM-Domain-Only 2) Modulates Sphk1 (Sphingosine Kinase) and Promotes Endothelial Cell Migration
Matrone, G, Meng, S, Gu, Q, Lv, J, Fang, L, Chen, K & Cooke, JP 2017, , Arteriosclerosis, Thrombosis, and Vascular Biology, vol. 37, no. 10, pp. 1860-1868.

Developing Spindlin1 small-molecule inhibitors by using protein microarrays
Bae, N, Viviano, M, Su, X, Lv, J, Cheng, D, Sagum, C, Castellano, S, Bai, X, Johnson, C, Khalil, MI, Shen, J, Chen, K, Li, H, Sbardella, G & Bedford, MT 2017, , Nature Chemical Biology, vol. 13, no. 7, pp. 750-756.