My Bibliography

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Xie W, Chu Q, Brea L, Zeng G, Wang Y, Lu X, Zheng M, Ley CR, Lei Z, Shi H, Zhu JL, Gong L, Martin MC, Shi X, Gritsina G, Grigorescu AA, Chandonnet H, Liu X, Zhao JC, Schiltz GE, Yu J. EZH2 PROTACs outperform catalytic inhibitors in prostate cancer by targeting a methylation-independent function of PRC2. Oncogene. 2026 Feb;45(5):636-649. doi: 10.1038/s41388-025-03662-z. Epub 2026 Jan 7. PubMed PMID: 41501210; PubMed Central PMCID: PMC12846922.

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Lu X, Peng L, Chu Q, Ye S, Liu M, Hussain M, Bilen MA, Harik LR, Melamed J, Zhao JC, Yu J. Targeting p300 and CBP abolishes HOXB13-loss-induced lipogenesis and tumor metastasis. JCI Insight. 2025 Nov 24;10(22). doi: 10.1172/jci.insight.195743. eCollection 2025 Nov 24. PubMed PMID: 41277556; PubMed Central PMCID: PMC12643514.

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Yi Y, Fry J, Yum C, Wang R, Wu S, Narayan S, Liu Q, Zhang X, Oo HZ, Xie N, Li Y, Gao X, Yu X, Hu X, Li Q, Keseroglu K, Özbudak EM, Abdulkadir SA, Chen K, Jin J, Zhao JC, Dong X, Arango D, Yang R, Cao Q. EZH2 crosstalk with RNA methylation promotes prostate cancer progression through modulation of m6A autoregulation pathway. J Clin Invest. 2026 Jan 16;136(2). doi: 10.1172/JCI195840. eCollection 2026 Jan 16. PubMed PMID: 41252201; PubMed Central PMCID: PMC12807473.

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Lu X, Keo V, Cheng I, Xie W, Gritsina G, Wang J, Lu L, Shiau CK, He Y, Jin Q, Jin P, Sanda MG, Corces VG, Altemose N, Gao R, Zhao JC, Yu J. NKX2-1 drives neuroendocrine transdifferentiation of prostate cancer via epigenetic and 3D chromatin remodeling. Nat Genet. 2025 Aug;57(8):1966-1980. doi: 10.1038/s41588-025-02265-4. Epub 2025 Jul 21. PubMed PMID: 40691407; PubMed Central PMCID: PMC12339387.

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Odnokoz O, Banerjee A, Cui X, Zeng L, Uddin A, Li C, Zhu Y, Zhang M, Lu X, Yarla NS, Wang L, Yu J, Zhao JC, Bahar I, Wan Y. Disruption of ARID1B Recruitment to the Nuclear Pore Complex as a New Anticancer Therapeutic Strategy. Adv Sci (Weinh). 2025 Sep;12(36):e15585. doi: 10.1002/advs.202415585. Epub 2025 Jul 16. PubMed PMID: 40671262; PubMed Central PMCID: PMC12463049.

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Keo V, Lu X, Brea L, Shi X, Yu J, Zhao JC. A Hierarchy of Luminal Transcription Factors Defines AR Cistrome and Is Lost in Neuroendocrine Prostate Cancer. Cancer Heterog Plast. 2025;2(2). doi: 10.47248/chp2502020008. Epub 2025 May 6. PubMed PMID: 41768226; PubMed Central PMCID: PMC12945349.

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Chu Q, Peng L, Brea L, Keo V, Lu X, Yu J, Zhao JC. Appropriate normalization is critical to improve reproducibility of tissue ChIP-seq. Serican J Med. 2025 May;2(3). doi: 10.17161/sjm.v2i3.23692. PubMed PMID: 41657940; PubMed Central PMCID: PMC12880172.

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Chen X, Lu X, Shi X, Yu S, Zhao J. Long-Read Sequencing Outperforms Short-Read Sequencing in Detecting Most Structural Variations. Serican J Med. 2025 Feb 3;2(2). doi: 10.17161/sjm.v2i2.23671. PubMed PMID: 41664673; PubMed Central PMCID: PMC12883271.

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Shi X, Lu X, Chen X, Yu S, Arnold RS, Master VA, Zhao JC. Impact of Nanopore Flow Cell Types on DNA Methylation Detection. Serican J Med. 2025 Feb 3;2(2). doi: 10.17161/sjm.v2i2.23664. PubMed PMID: 41658019; PubMed Central PMCID: PMC12880221.

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Zerdan MB, Bilen MA, Yu J. Therapeutic targeting of Aurora Kinase A in advanced prostate cancer. Serican J Med. 2025 Feb 3;2(2). doi: 10.17161/sjm.v2i2.23274. Epub 2025 Feb 7. PubMed PMID: 41658018; PubMed Central PMCID: PMC12881931.

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Gritsina G, Fong KW, Lu X, Lin Z, Xie W, Agarwal S, Lin D, Schiltz GE, Beltran H, Corey E, Morrissey C, Wang Y, Zhao JC, Hussain M, Yu J. Chemokine receptor CXCR7 activates Aurora Kinase A and promotes neuroendocrine prostate cancer growth. J Clin Invest. 2023 Aug 1;133(15). doi: 10.1172/JCI166248. PubMed PMID: 37347559; PubMed Central PMCID: PMC10378179.

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Lin Z, Agarwal S, Tan S, Shi H, Lu X, Tao Z, Dong X, Wu X, Zhao JC, Yu J. Palmitoyl acyltransferase ZDHHC7 inhibits androgen receptor and suppresses prostate cancer. Oncogene. 2023 Jun;42(26):2126-2138. doi: 10.1038/s41388-023-02718-2. Epub 2023 May 17. PubMed PMID: 37198397.

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Fong KW, Zhao JC, Lu X, Kim J, Piunti A, Shilatifard A, Yu J. PALI1 promotes tumor growth through competitive recruitment of PRC2 to G9A-target chromatin for dual epigenetic silencing. Mol Cell. 2022 Dec 15;82(24):4611-4626.e7. doi: 10.1016/j.molcel.2022.11.010. Epub 2022 Dec 6. PubMed PMID: 36476474; PubMed Central PMCID: PMC9812274.

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Wang X, Brea L, Lu X, Gritsina G, Park SH, Xie W, Zhao JC, Yu J. FOXA1 inhibits hypoxia programs through transcriptional repression of HIF1A. Oncogene. 2022 Sep;41(37):4259-4270. doi: 10.1038/s41388-022-02423-6. Epub 2022 Aug 5. PubMed PMID: 35931888; PubMed Central PMCID: PMC9464719.

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Lu X, Fong KW, Gritsina G, Wang F, Baca SC, Brea LT, Berchuck JE, Spisak S, Ross J, Morrissey C, Corey E, Chandel NS, Catalona WJ, Yang X, Freedman ML, Zhao JC, Yu J. HOXB13 suppresses de novo lipogenesis through HDAC3-mediated epigenetic reprogramming in prostate cancer. Nat Genet. 2022 May;54(5):670-683. doi: 10.1038/s41588-022-01045-8. Epub 2022 Apr 25. PubMed PMID: 35468964; PubMed Central PMCID: PMC9117466.

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Park SH, Fong KW, Kim J, Wang F, Lu X, Lee Y, Brea LT, Wadosky K, Guo C, Abdulkadir SA, Crispino JD, Fang D, Ntziachristos P, Liu X, Li X, Wan Y, Goodrich DW, Zhao JC, Yu J. Posttranslational regulation of FOXA1 by Polycomb and BUB3/USP7 deubiquitin complex in prostate cancer. Sci Adv. 2021 Apr;7(15). doi: 10.1126/sciadv.abe2261. Print 2021 Apr. PubMed PMID: 33827814; PubMed Central PMCID: PMC8026124.

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Vatapalli R, Sagar V, Rodriguez Y, Zhao JC, Unno K, Pamarthy S, Lysy B, Anker J, Han H, Yoo YA, Truica M, Chalmers ZR, Giles F, Yu J, Chakravarti D, Carneiro B, Abdulkadir SA. Histone methyltransferase DOT1L coordinates AR and MYC stability in prostate cancer. Nat Commun. 2020 Aug 19;11(1):4153. doi: 10.1038/s41467-020-18013-7. PubMed PMID: 32814769; PubMed Central PMCID: PMC7438336.

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Xu B, Song B, Lu X, Kim J, Hu M, Zhao JC, Yu J. Altered chromatin recruitment by FOXA1 mutations promotes androgen independence and prostate cancer progression. Cell Res. 2019 Sep;29(9):773-775. doi: 10.1038/s41422-019-0204-1. Epub 2019 Jul 19. PubMed PMID: 31324884; PubMed Central PMCID: PMC6796844.

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Li S, Fong KW, Gritsina G, Zhang A, Zhao JC, Kim J, Sharp A, Yuan W, Aversa C, Yang XJ, Nelson PS, Feng FY, Chinnaiyan AM, de Bono JS, Morrissey C, Rettig MB, Yu J. Activation of MAPK Signaling by CXCR7 Leads to Enzalutamide Resistance in Prostate Cancer. Cancer Res. 2019 May 15;79(10):2580-2592. doi: 10.1158/0008-5472.CAN-18-2812. Epub 2019 Apr 5. PubMed PMID: 30952632; PubMed Central PMCID: PMC6522281.

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Song B, Park SH, Zhao JC, Fong KW, Li S, Lee Y, Yang YA, Sridhar S, Lu X, Abdulkadir SA, Vessella RL, Morrissey C, Kuzel TM, Catalona W, Yang X, Yu J. Targeting FOXA1-mediated repression of TGF-β signaling suppresses castration-resistant prostate cancer progression. J Clin Invest. 2019 Feb 1;129(2):569-582. doi: 10.1172/JCI122367. Epub 2018 Dec 18. PubMed PMID: 30511964; PubMed Central PMCID: PMC6355239.

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Kim J, Lee Y, Lu X, Song B, Fong KW, Cao Q, Licht JD, Zhao JC, Yu J. Polycomb- and Methylation-Independent Roles of EZH2 as a Transcription Activator. Cell Rep. 2018 Dec 4;25(10):2808-2820.e4. doi: 10.1016/j.celrep.2018.11.035. PubMed PMID: 30517868; PubMed Central PMCID: PMC6342284.

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Fong KW, Zhao JC, Song B, Zheng B, Yu J. TRIM28 protects TRIM24 from SPOP-mediated degradation and promotes prostate cancer progression. Nat Commun. 2018 Nov 27;9(1):5007. doi: 10.1038/s41467-018-07475-5. PubMed PMID: 30479348; PubMed Central PMCID: PMC6258673.

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Liu H, Dai X, Cao X, Yan H, Ji X, Zhang H, Shen S, Si Y, Zhang H, Chen J, Li L, Zhao JC, Yu J, Feng XH, Zhao B. PRDM4 mediates YAP-induced cell invasion by activating leukocyte-specific integrin β2 expression. EMBO Rep. 2018 Jun;19(6). doi: 10.15252/embr.201745180. Epub 2018 Apr 17. PubMed PMID: 29669796; PubMed Central PMCID: PMC5989780.

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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. BMI1 regulates androgen receptor in prostate cancer independently of the polycomb repressive complex 1. Nat Commun. 2018 Feb 5;9(1):500. doi: 10.1038/s41467-018-02863-3. PubMed PMID: 29402932; PubMed Central PMCID: PMC5799368.

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Njoroge RN, Unno K, Zhao JC, Naseem AF, Anker JF, McGee WA, Nonn L, Abdulkadir SA. Organoids model distinct Vitamin E effects at different stages of prostate cancer evolution. Sci Rep. 2017 Nov 24;7(1):16285. doi: 10.1038/s41598-017-16459-2. PubMed PMID: 29176677; PubMed Central PMCID: PMC5701195.

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Putzbach W, Gao QQ, Patel M, van Dongen S, Haluck-Kangas A, Sarshad AA, Bartom ET, Kim KA, Scholtens DM, Hafner M, Zhao JC, Murmann AE, Peter ME. Many si/shRNAs can kill cancer cells by targeting multiple survival genes through an off-target mechanism. Elife. 2017 Oct 24;6. doi: 10.7554/eLife.29702. PubMed PMID: 29063830; PubMed Central PMCID: PMC5655136.

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Zingariello M, Sancillo L, Martelli F, Ciaffoni F, Marra M, Varricchio L, Rana RA, Zhao C, Crispino JD, Migliaccio AR. The thrombopoietin/MPL axis is activated in the Gata1(low) mouse model of myelofibrosis and is associated with a defective RPS14 signature. Blood Cancer J. 2017 Jun 16;7(6):e572. doi: 10.1038/bcj.2017.51. PubMed PMID: 28622305; PubMed Central PMCID: PMC5520398.

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Kim J, Jin H, Zhao JC, Yang YA, Li Y, Yang X, Dong X, Yu J. FOXA1 inhibits prostate cancer neuroendocrine differentiation. Oncogene. 2017 Jul 13;36(28):4072-4080. doi: 10.1038/onc.2017.50. Epub 2017 Mar 20. PubMed PMID: 28319070; PubMed Central PMCID: PMC5509480.

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Qadir AS, Ceppi P, Brockway S, Law C, Mu L, Khodarev NN, Kim J, Zhao JC, Putzbach W, Murmann AE, Chen Z, Chen W, Liu X, Salomon AR, Liu H, Weichselbaum RR, Yu J, Peter ME. CD95/Fas Increases Stemness in Cancer Cells by Inducing a STAT1-Dependent Type I Interferon Response. Cell Rep. 2017 Mar 7;18(10):2373-2386. doi: 10.1016/j.celrep.2017.02.037. PubMed PMID: 28273453; PubMed Central PMCID: PMC5474321.

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Gilles L, Arslan AD, Marinaccio C, Wen QJ, Arya P, McNulty M, Yang Q, Zhao JC, Konstantinoff K, Lasho T, Pardanani A, Stein B, Plo I, Sundaravel S, Wickrema A, Migliaccio A, Gurbuxani S, Vainchenker W, Platanias LC, Tefferi A, Crispino JD. Downregulation of GATA1 drives impaired hematopoiesis in primary myelofibrosis. J Clin Invest. 2017 Apr 3;127(4):1316-1320. doi: 10.1172/JCI82905. Epub 2017 Feb 27. PubMed PMID: 28240607; PubMed Central PMCID: PMC5373858.

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Fong KW, Zhao JC, Kim J, Li S, Yang YA, Song B, Rittie L, Hu M, Yang X, Perbal B, Yu J. Polycomb-Mediated Disruption of an Androgen Receptor Feedback Loop Drives Castration-Resistant Prostate Cancer. Cancer Res. 2017 Jan 15;77(2):412-422. doi: 10.1158/0008-5472.CAN-16-1949. Epub 2016 Nov 4. PubMed PMID: 27815387; PubMed Central PMCID: PMC5243151.

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Yang YA, Zhao JC, Fong KW, Kim J, Li S, Song C, Song B, Zheng B, He C, Yu J. FOXA1 potentiates lineage-specific enhancer activation through modulating TET1 expression and function. Nucleic Acids Res. 2016 Sep 30;44(17):8153-64. doi: 10.1093/nar/gkw498. Epub 2016 Jun 1. PubMed PMID: 27257062; PubMed Central PMCID: PMC5041455.

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Zhao J, Li X, Guo M, Yu J, Yan C. The common stress responsive transcription factor ATF3 binds genomic sites enriched with p300 and H3K27ac for transcriptional regulation. BMC Genomics. 2016 May 4;17:335. doi: 10.1186/s12864-016-2664-8. PubMed PMID: 27146783; PubMed Central PMCID: PMC4857411.

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Zhao JC, Fong KW, Jin HJ, Yang YA, Kim J, Yu J. FOXA1 acts upstream of GATA2 and AR in hormonal regulation of gene expression. Oncogene. 2016 Aug 18;35(33):4335-44. doi: 10.1038/onc.2015.496. Epub 2016 Jan 11. PubMed PMID: 26751772; PubMed Central PMCID: PMC4940300.

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Zhang A, Zhao JC, Kim J, Fong KW, Yang YA, Chakravarti D, Mo YY, Yu J. LncRNA HOTAIR Enhances the Androgen-Receptor-Mediated Transcriptional Program and Drives Castration-Resistant Prostate Cancer. Cell Rep. 2015 Oct 6;13(1):209-221. doi: 10.1016/j.celrep.2015.08.069. Epub 2015 Sep 24. PubMed PMID: 26411689; PubMed Central PMCID: PMC4757469.

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Xue X, Yang YA, Zhang A, Fong KW, Kim J, Song B, Li S, Zhao JC, Yu J. LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer. Oncogene. 2016 May;35(21):2746-55. doi: 10.1038/onc.2015.340. Epub 2015 Sep 14. PubMed PMID: 26364613; PubMed Central PMCID: PMC4791209.

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Shen S, Guo X, Yan H, Lu Y, Ji X, Li L, Liang T, Zhou D, Feng XH, Zhao JC, Yu J, Gong XG, Zhang L, Zhao B. A miR-130a-YAP positive feedback loop promotes organ size and tumorigenesis. Cell Res. 2015 Sep;25(9):997-1012. doi: 10.1038/cr.2015.98. Epub 2015 Aug 14. PubMed PMID: 26272168; PubMed Central PMCID: PMC4559818.

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Jin HJ, Zhao JC, Wu L, Kim J, Yu J. Cooperativity and equilibrium with FOXA1 define the androgen receptor transcriptional program. Nat Commun. 2014 May 30;5:3972. doi: 10.1038/ncomms4972. PubMed PMID: 24875621; PubMed Central PMCID: PMC4088269.

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Kim J, Wu L, Zhao JC, Jin HJ, Yu J. TMPRSS2-ERG gene fusions induce prostate tumorigenesis by modulating microRNA miR-200c. Oncogene. 2014 Oct 30;33(44):5183-92. doi: 10.1038/onc.2013.461. Epub 2013 Nov 4. PubMed PMID: 24186205; PubMed Central PMCID: PMC4009393.

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Wu L, Zhao JC, Kim J, Jin HJ, Wang CY, Yu J. ERG is a critical regulator of Wnt/LEF1 signaling in prostate cancer. Cancer Res. 2013 Oct 1;73(19):6068-79. doi: 10.1158/0008-5472.CAN-13-0882. Epub 2013 Aug 1. PubMed PMID: 23913826; PubMed Central PMCID: PMC3790861.

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Wang L, Zeng X, Chen S, Ding L, Zhong J, Zhao JC, Wang L, Sarver A, Koller A, Zhi J, Ma Y, Yu J, Chen J, Huang H. BRCA1 is a negative modulator of the PRC2 complex. EMBO J. 2013 May 29;32(11):1584-97. doi: 10.1038/emboj.2013.95. Epub 2013 Apr 26. PubMed PMID: 23624935; PubMed Central PMCID: PMC3671259.

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Jin HJ, Zhao JC, Ogden I, Bergan RC, Yu J. Androgen receptor-independent function of FoxA1 in prostate cancer metastasis. Cancer Res. 2013 Jun 15;73(12):3725-36. doi: 10.1158/0008-5472.CAN-12-3468. Epub 2013 Mar 28. PubMed PMID: 23539448; PubMed Central PMCID: PMC3686855.

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Zhao JC, Yu J, Runkle C, Wu L, Hu M, Wu D, Liu JS, Wang Q, Qin ZS, Yu J. Cooperation between Polycomb and androgen receptor during oncogenic transformation. Genome Res. 2012 Feb;22(2):322-31. doi: 10.1101/gr.131508.111. Epub 2011 Dec 16. PubMed PMID: 22179855; PubMed Central PMCID: PMC3266039.

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Fayz B, Moldenhauer JS, Wang D, Zhao C, Yao B, Liu D, Weinsheimer S, Gardner L, Johnson A, Womble DD, Krawetz SA. LARALink: a web application for cytogenetic linkage analysis. Clin Genet. 2005 Apr;67(4):314-21. doi: 10.1111/j.1399-0004.2005.00409.x. PubMed PMID: 15733267.