If you made any changes in Pure these will be visible here soon.

Research Output

  • 2343 Citations
  • 23 h-Index
  • 51 Article
  • 1 Comment/debate
  • 1 Editorial
  • 1 Review article
2020

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. & 2 others, Chen, K. & Cao, Q., Jan 2020, In : Oncogene. 39, 1, p. 17-29 13 p.

Research output: Contribution to journalArticle

2 Scopus citations

Machine learning uncovers cell identity regulator by histone code

Xia, B., Zhao, D., Wang, G., Zhang, M., Lv, J., Tomoiaga, A. S., Li, Y., Wang, X., Meng, S., Cooke, J. P., Cao, Q., Zhang, L. & Chen, K., Jun 1 2020, In : Nature Communications. 11, 1, 2696.

Research output: Contribution to journalArticle

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, J. P., Cao, Q. & Chen, K., Apr 2 2020, In : Genome Biology. 21, 1, 84.

Research output: Contribution to journalArticle

2019

AIBP-mediated cholesterol efflux instructs hematopoietic stem and progenitor cell fate

Gu, Q., Yang, X., Lv, J., Zhang, J., Xia, B., Kim, J. D., Wang, R., Xiong, F., Meng, S., Clements, T. P., Tandon, B., Wagner, D. S., Diaz, M. F., Wenzel, P. L., Miller, Y. I., Traver, D., Cooke, J. P., Li, W., Zon, L. I., Chen, K. & 2 others, Bai, Y. & Fang, L., Mar 8 2019, In : Science. p. eaav1749

Research output: Contribution to journalArticle

23 Scopus citations

Nuclear S-nitrosylation defines an optimal zone for inducing pluripotency

Chanda, P. K., Meng, S., Lee, J., Leung, H. E., Chen, K. & Cooke, J. P., Sep 24 2019, In : Circulation. 140, 13, p. 1081-1099 19 p.

Research output: Contribution to journalArticle

2 Scopus citations

Polycomb group proteins EZH2 and EED directly regulate androgen receptor in advanced prostate cancer

Liu, Q., Wang, G., Li, Q., Jiang, W., Kim, J. S., Wang, R., Zhu, S., Wang, X., Yan, L., Yi, Y., Zhang, L., Meng, Q., Li, C., Zhao, D., Qiao, Y., Li, Y., Gursel, D. B., Chinnaiyan, A. M., Chen, K. & Cao, Q., Jul 15 2019, In : International Journal of Cancer. 145, 2, p. 415-426 12 p.

Research output: Contribution to journalArticle

10 Scopus citations

Roles of the HOXA10 gene during castrate-resistant prostate cancer progression

Long, Z., Li, Y., Gan, Y., Zhao, D., Wang, G., Xie, N., Lovnicki, J. M., Fazli, L., Cao, Q., Chen, K. & Dong, X., Mar 2019, In : Endocrine-Related Cancer. 26, 3, p. 279-292 14 p.

Research output: Contribution to journalArticle

3 Scopus citations
2018

3′ UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk

Park, H. J., Ji, P., Kim, S., Xia, Z., Rodriguez, B., Li, L., Su, J., Chen, K., Masamha, C. P., Baillat, D., Fontes-Garfias, C. R., Shyu, A. B., Neilson, J. R., Wagner, E. J. & Li, W., Jun 1 2018, In : Nature Genetics. 50, 6, p. 783-789 7 p.

Research output: Contribution to journalArticle

50 Scopus citations

BMI1 regulates androgen receptor in prostate cancer independently of the polycomb repressive complex 1

Zhu, S., Zhao, D., Yan, L., Jiang, W., Kim, J. S., Gu, B., Liu, Q., Wang, R., Xia, B., Zhao, J. C., Song, G., Mi, W., Wang, R. F., Shi, X., Lam, H. M., Dong, X., Yu, J., Chen, K. & Cao, Q., Feb 5 2018, In : Nature Communications. 9, 1, 500.

Research output: Contribution to journalArticle

23 Scopus citations

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., Dec 13 2018, In : Nature. 564, 7735, p. 287-290 4 p.

Research output: Contribution to journalArticle

9 Scopus citations

Homeobox oncogene activation by pan-cancer DNA hypermethylation

Su, J., Huang, Y. H., Cui, X., Wang, X., Zhang, X., Lei, Y., Xu, J., Lin, X., Chen, K., Lv, J., Goodell, M. A. & Li, W., Aug 10 2018, In : Genome Biology. 19, 1, 108.

Research output: Contribution to journalArticle

26 Scopus citations

HP1ɣ promotes lung adenocarcinoma by downregulating the transcription-repressive regulators NCOR2 and ZBTB7A

Alam, H., Li, N., Dhar, S. S., Wu, S. J., Lv, J., Chen, K., Flores, E. R., Baseler, L. & Lee, M. G., Jul 15 2018, In : Cancer research. 78, 14, p. 3834-3848 15 p.

Research output: Contribution to journalArticle

20 Scopus citations

MLL4 Is Required to Maintain Broad H3K4me3 Peaks and Super-Enhancers at Tumor Suppressor Genes

Dhar, S. S., Zhao, D., Lin, T., Gu, B., Pal, K., Wu, S. J., Alam, H., Lv, J., Yun, K., Gopalakrishnan, V., Flores, E. R., Northcott, P. A., Rajaram, V., Li, W., Shilatifard, A., Sillitoe, R. V., Chen, K. & Lee, M. G., Jun 7 2018, In : Molecular Cell. 70, 5, p. 825-841.e6

Research output: Contribution to journalArticle

27 Scopus citations

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, X. C., Jul 17 2018, In : Cell Reports. 24, 3, p. 607-618 12 p.

Research output: Contribution to journalArticle

27 Scopus citations

PAF-Myc-Controlled Cell Stemness Is Required for Intestinal Regeneration and Tumorigenesis

Kim, M. J., Xia, B., Suh, H. N., Lee, S. H., Jun, S., Lien, E. M., Zhang, J., Chen, K. & Park, J. I., Mar 12 2018, In : Developmental Cell. 44, 5, p. 582-596.e4

Research output: Contribution to journalArticle

4 Scopus citations

Ssd1 and Gcn2 suppress global translation efficiency in replicatively aged yeast while their activation extends lifespan

Hu, Z., Xia, B., Postnikoff, S. D. L., Shen, Z. J., Tomoiaga, A. S., Harkness, T. A., Seol, J. H., Li, W., Chen, K. & Tyler, J. K., Aug 17 2018, In : eLife. 7, e35551.

Research output: Contribution to journalArticle

12 Scopus citations

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, J. P. & Fang, L., Aug 28 2018, In : Circulation. 138, 9, p. 913-928 16 p.

Research output: Contribution to journalArticle

3 Scopus citations
2017

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, M. I., Shen, J., Chen, K., Li, H., Sbardella, G. & Bedford, M. T., Jul 1 2017, In : Nature Chemical Biology. 13, 7, p. 750-756 7 p.

Research output: Contribution to journalArticle

22 Scopus citations

Discovery of novel determinants of endothelial lineage using chimeric heterokaryons

Wong, J., Matrone, G., Tian, X., Tomoiaga, S. A., Au, K. F., Meng, S., Yamazoe, S., Sieveking, D., Chen, K., Burns, D. M., Chen, J. K., Blau, H. M. & Cooke, J. P., Mar 21 2017, In : eLife. 6, e23588.

Research output: Contribution to journalArticle

2 Scopus citations

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, J. P., Oct 1 2017, In : Arteriosclerosis, Thrombosis, and Vascular Biology. 37, 10, p. 1860-1868 9 p.

Research output: Contribution to journalArticle

5 Scopus citations

RPA binds histone H3-H4 and functions in DNA replication-coupled nucleosome assembly

Liu, S., Xu, Z., Leng, H., Zheng, P., Yang, J., Chen, K., Feng, J. & Li, Q., Jan 27 2017, In : Science (New York, N.Y.). 355, 6323, p. 415-420 6 p.

Research output: Contribution to journalArticle

27 Scopus citations

Sparse conserved under-methylated CpGs are associated with high-order chromatin structure

Lin, X., Su, J., Chen, K., Rodriguez, B. & Li, W., Aug 31 2017, In : Genome Biology. 18, 1, 163.

Research output: Contribution to journalArticle

5 Scopus citations

Steroid receptor coactivator-1 can regulate osteoblastogenesis independently of estrogen

Watters, R. J., Hartmaier, R. J., Osmanbeyoglu, H. U., Gillihan, R. M., Rae, J. M., Liao, L., Chen, K., Li, W., Lu, X. & Oesterreich, S., Jun 15 2017, In : Molecular and cellular endocrinology. 448, p. 21-27 7 p.

Research output: Contribution to journalArticle

2016

A feedback loop comprising PRMT7 and miR-24-2 interplays with Oct4, Nanog, Klf4 and c-Myc to regulate stemness

Lee, S. H., Chen, T. Y., Dhar, S. S., Gu, B., Chen, K., Kim, Y. Z., Li, W. & Lee, M. G., Sep 12 2016, In : Nucleic Acids Research. 44, 22, p. 10603-10618 16 p.

Research output: Contribution to journalArticle

29 Scopus citations

An essential role for UTX in resolution and activation of bivalent promoters

Dhar, S. S., Lee, S. H., Chen, K., Zhu, G., Oh, W. K., Allton, K., Gafni, O., Kim, Y. Z., Tomoiga, A. S., Barton, M. C., Hanna, J. H., Wang, Z., Li, W. & Lee, M. G., May 5 2016, In : Nucleic Acids Research. 44, 8, p. 3659-3674 16 p.

Research output: Contribution to journalArticle

30 Scopus citations

Broad H3K4me3 as A Novel Epigenetic Signature for Normal Development and Disease

Lv, J. & Chen, K., Oct 1 2016, In : Genomics, Proteomics and Bioinformatics. 14, 5, p. 262-264 3 p.

Research output: Contribution to journalEditorial

2 Scopus citations

LIM domain only 2 regulates endothelial proliferation, angiogenesis, and tissue regeneration

Meng, S., Matrone, G., Lv, J., Chen, K., Wong, J. W. T. & Cooke, J. P., Oct 6 2016, In : Journal of the American Heart Association. 5, 10, e004117.

Research output: Contribution to journalArticle

5 Scopus citations

The overlooked fact: Fundamental need for spike-in control for virtually all genome-wide analyses

Chen, K., Hu, Z., Xi, Z., Zhao, D., Li, W. & Tyler, J. K., 2016, In : Molecular and Cellular Biology. 36, 5, p. 662-667 6 p.

Research output: Contribution to journalArticle

55 Scopus citations

ZMYND8 Reads the Dual Histone Mark H3K4me1-H3K14ac to Antagonize the Expression of Metastasis-Linked Genes

Li, N., Li, Y., Lv, J., Zheng, X., Wen, H., Shen, H., Zhu, G., Chen, T. Y., Dhar, S. S., Kan, P. Y., Wang, Z., Shiekhattar, R., Shi, X., Lan, F., Chen, K., Li, W., Li, H. & Lee, G. M., Jul 28 2016, In : Molecular Cell. 63, 3, p. 470-484 15 p.

Research output: Contribution to journalArticle

41 Scopus citations
2015

Broad H3K4me3 is associated with increased transcription elongation and enhancer activity at tumor-suppressor genes

Chen, K., Chen, Z., Wu, D., Zhang, L., Lin, X., Su, J., Rodriguez, B., Xi, Y., Xia, Z., Chen, X., Shi, X., Wang, Q. & Li, W., Sep 29 2015, In : Nature Genetics. 47, 10, p. 1149-1157 9 p.

Research output: Contribution to journalArticle

115 Scopus citations

MeCP2 binds to non-CG methylated DNA as neurons mature, influencing transcription and the timing of onset for Rett syndrome

Chen, L., Chen, K., Lavery, L. A., Baker, S. A., Shaw, C. A., Li, W. & Zoghbi, H. Y., Apr 28 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 17, p. 5509-5514 6 p.

Research output: Contribution to journalArticle

128 Scopus citations
2014

A matter of access: Nucleosome disassembly from gene promoters is the central goal of transcriptional activators

Hu, Z., Chen, K., Li, W. & Tyler, J. K., Jun 11 2014, In : Transcription. 5, JUN, e29355.

Research output: Contribution to journalArticle

2 Scopus citations

MACE: model based analysis of ChIP-exo

Wang, L., Chen, J., Wang, C., Uusküla-Reimand, L., Chen, K., Medina-Rivera, A., Young, E. J., Zimmermann, M. T., Yan, H., Sun, Z., Zhang, Y., Wu, S. T., Huang, H., Wilson, M. D., Kocher, J. P. A. & Li, W., Nov 10 2014, In : Nucleic Acids Research. 42, 20, p. e156

Research output: Contribution to journalArticle

42 Scopus citations

Nucleosome loss leads to global transcriptional up-regulation and genomic instability during yeast aging

Hu, Z., Chen, K., Xia, Z., Chavez, M., Pal, S., Seol, J. H., Chen, C. C., Li, W. & Tyler, J. K., Feb 15 2014, In : Genes and Development. 28, 4, p. 396-408 13 p.

Research output: Contribution to journalArticle

132 Scopus citations

Transcriptional and genomic mayhem due to aging-induced nucleosome loss in budding yeast

Hu, Z., Chen, K., Li, W. & Tyler, J. K., Apr 2014, In : Microbial Cell. 1, 4, p. 133-136 4 p.

Research output: Contribution to journalReview article

2 Scopus citations
2013

A Functional Variomics Tool for Discovering Drug-Resistance Genes and Drug Targets

Huang, Z., Chen, K., Zhang, J., Li, Y., Wang, H., Cui, D., Tang, J., Liu, Y., Shi, X., Li, W., Liu, D., Chen, R., Sucgang, R. S. & Pan, X., 2013, In : Cell Reports. 3, 2, p. 577-585 9 p.

Research output: Contribution to journalArticle

41 Scopus citations

DANPOS: Dynamic analysis of nucleosome position and occupancy by sequencing

Chen, K., Xi, Y., Pan, X., Li, Z., Kaestner, K., Tyler, J., Dent, S., He, X. & Li, W., Feb 2013, In : Genome Research. 23, 2, p. 341-351 11 p.

Research output: Contribution to journalArticle

158 Scopus citations

Genome sequence of the date palm Phoenix dactylifera L

Al-Mssallem, I. S., Hu, S., Zhang, X., Lin, Q., Liu, W., Tan, J., Yu, X., Liu, J., Pan, L., Zhang, T., Yin, Y., Xin, C., Wu, H., Zhang, G., Ba Abdullah, M. M., Huang, D., Fang, Y., Alnakhli, Y. O., Jia, S., Yin, A. & 23 others, Alhuzimi, E. M., Alsaihati, B. A., Al-Owayyed, S. A., Zhao, D., Zhang, S., Al-Otaibi, N. A., Sun, G., Majrashi, M. A., Li, F., Wang, J., Yun, Q., Alnassar, N. A., Wang, L., Yang, M., Al-Jelaify, R. F., Liu, K., Gao, S., Chen, K., Alkhaldi, S. R., Liu, G., Zhang, M., Guo, H. & Yu, J., 2013, In : Nature Communications. 4, 2274.

Research output: Contribution to journalArticle

136 Scopus citations

Stabilization of the promoter nucleosomes in nucleosome-free regions by the yeast Cyc8-Tup1 corepressor

Chen, K., Wilson, M. A., Hirsch, C., Watson, A., Liang, S., Lu, Y., Li, W. & Dent, S. Y. R., Feb 2013, In : Genome Research. 23, 2, p. 312-322 11 p.

Research output: Contribution to journalArticle

18 Scopus citations
2012

Discovering Thiamine Transporters as Targets of Chloroquine Using a Novel Functional Genomics Strategy

Huang, Z., Srinivasan, S., Zhang, J., Chen, K., Li, Y., Li, W., Quiocho, F. A. & Pan, X., Nov 2012, In : PLoS Genetics. 8, 11, e1003083.

Research output: Contribution to journalArticle

9 Scopus citations

Foxa2 and H2A.Z mediate nucleosome depletion during embryonic stem cell differentiation

Li, Z., Gadue, P., Chen, K., Jiao, Y., Tuteja, G., Schug, J., Li, W. & Kaestner, K. H., Dec 21 2012, In : Cell. 151, 7, p. 1608-1616 9 p.

Research output: Contribution to journalArticle

125 Scopus citations

Loss of the methyl lysine effector protein PHF20 impacts the expression of genes regulated by the lysine acetyltransferase MOF

Badeaux, A. I., Yang, Y., Cardenas, K., Vemulapalli, V., Chen, K., Kusewitt, D., Richie, E., Li, W. & Bedford, M. T., Jan 2 2012, In : Journal of Biological Chemistry. 287, 1, p. 429-437 9 p.

Research output: Contribution to journalArticle

23 Scopus citations

SIRT7 links H3K18 deacetylation to maintenance of oncogenic transformation

Barber, M. F., Michishita-Kioi, E., Xi, Y., Tasselli, L., Kioi, M., Moqtaderi, Z., Tennen, R. I., Paredes, S., Young, N. L., Chen, K., Struhl, K., Garcia, B. A., Gozani1, O., Li, W. & Chua, K. F., Jul 2012, In : Nature. 487, 7405, p. 114-118 5 p.

Research output: Contribution to journalArticle

321 Scopus citations

The Fun30 nucleosome remodeller promotes resection of DNA double-strand break ends

Chen, X., Cui, D., Papusha, A., Zhang, X., Chu, C. D., Tang, J., Chen, K., Pan, X. & Ira, G., Sep 27 2012, In : Nature. 489, 7417, p. 576-580 5 p.

Research output: Contribution to journalArticle

141 Scopus citations
2011

An evolutionary analysis of trypanosomatid GP63 proteases

Ma, L., Chen, K., Meng, Q., Liu, Q., Tang, P., Hu, S. & Yu, J., Oct 2011, In : Parasitology Research. 109, 4, p. 1075-1084 10 p.

Research output: Contribution to journalArticle

15 Scopus citations

A systematic identification of Kolobok superfamily transposons in Trichomonas vaginalis and sequence analysis on related transposases

Meng, Q., Chen, K., Ma, L., Hu, S. & Yu, J., Feb 1 2011, In : Journal of Genetics and Genomics. 38, 2, p. 63-70 8 p.

Research output: Contribution to journalArticle

3 Scopus citations

NSD2 Links Dimethylation of Histone H3 at Lysine 36 to Oncogenic Programming

Kuo, A. J., Cheung, P., Chen, K., Zee, B. M., Kioi, M., Lauring, J., Xi, Y., Park, B. H., Shi, X., Garcia, B. A., Li, W. & Gozani, O., Nov 18 2011, In : Molecular Cell. 44, 4, p. 609-620 12 p.

Research output: Contribution to journalArticle

211 Scopus citations

Sampangine inhibits heme biosynthesis in both yeast and human

Huang, Z., Chen, K., Xu, T., Zhang, J., Li, Y., Li, W., Agarwal, A. K., Clark, A. M., Phillips, J. D. & Pan, X., Nov 2011, In : Eukaryotic Cell. 10, 11, p. 1536-1544 9 p.

Research output: Contribution to journalArticle

20 Scopus citations