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Publications

Learn more about the work we do in the Cao Lab through our recent publications.

  1. Li Y, Yi Y, Lv J, Gao X, Yu Y, Babu SS, Bruno I, Zhao D, Xia B, Peng W  et al.  Low RNA stability signifies increased post-transcriptional regulation of cell identity genes.  Nucleic Acids Res  2023 Jul 07;51(12):6020-6038. doi:10.1093/nar/gkad300
  2. Lv J, Meng S, Gu Q, Zheng R, Gao X, Kim JD, Chen M, Xia B, Zuo Y, Zhu S  et al.  Publisher Correction: Epigenetic landscape reveals MECOM as an endothelial lineage regulator.  Nat Commun  2023 May 18;14(1):2842. pii:2842
  3. Lv J, Meng S, Gu Q, Zheng R, Gao X, Kim JD, Chen M, Xia B, Zuo Y, Zhu S  et al.  Epigenetic landscape reveals MECOM as an endothelial lineage regulator.  Nat Commun  2023 Apr 25;14(1):2390. pii:2390
  4. Gupta K, Wang G, Zhang S, Gao X, Zheng R, Zhang Y, Meng Q, Zhang L, Cao Q, Chen K  StripeDiff: Model-based algorithm for differential analysis of chromatin stripe.  Sci Adv  2022 Dec 09;8(49):eabk2246. pii:eabk2246
  5. Zhao D, Zhang M, Huang S, Liu Q, Zhu S, Li Y, Jiang W, Kiss DL, Cao Q, Zhang L  et al.  CHD6 promotes broad nucleosome eviction for transcriptional activation in prostate cancer cells.  Nucleic Acids Res  2022 Nov 28;50(21):12186-12201. doi:10.1093/nar/gkac1090
  6. Yi Y, Li Y, Li C, Wu L, Zhao D, Li F, Fazli L, Wang R, Wang L, Dong X  et al.  Methylation-dependent and -independent roles of EZH2 synergize in CDCA8 activation in prostate cancer.  Oncogene  2022 Mar;41(11):1610-1621. doi:10.1038/s41388-022-02208-x
  7. Lu B, Zou C, Yang M, He Y, He J, Zhang C, Chen S, Yu J, Liu KY, Cao Q  et al.  Pharmacological Inhibition of Core Regulatory Circuitry Liquid-liquid Phase Separation Suppresses Metastasis and Chemoresistance in Osteosarcoma.  Adv Sci (Weinh)  2021 Oct;8(20):e2101895. pii:2101895
  8. Ren Y, Wang TY, Anderton LC, Cao Q, Yang R  LncGSEA: a versatile tool to infer lncRNA associated pathways from large-scale cancer transcriptome sequencing data.  BMC Genomics  2021 Jul 27;22(1):574. pii:574
  9. Wang TY, Liu Q, Ren Y, Alam SK, Wang L, Zhu Z, Hoeppner LH, Dehm SM, Cao Q, Yang R  A pan-cancer transcriptome analysis of exitron splicing identifies novel cancer driver genes and neoepitopes.  Mol Cell  2021 May 20;81(10):2246-2260.e12. doi:10.1016/j.molcel.2021.03.028
  10. Yang Y, Liu KY, Liu Q, Cao Q  Androgen Receptor-Related Non-coding RNAs in Prostate Cancer.  Front Cell Dev Biol  2021;9:660853. pii:660853
  11. Yi Y, Li Y, Meng Q, Li Q, Li F, Lu B, Shen J, Fazli L, Zhao D, Li C  et al.  A PRC2-independent function for EZH2 in regulating rRNA 2'-O methylation and IRES-dependent translation.  Nat Cell Biol  2021 Apr;23(4):341-354. doi:10.1038/s41556-021-00653-6
  12. Wang G, Xia B, Zhou M, Lv J, Zhao D, Li Y, Bu Y, Wang X, Cooke JP, Cao Q  et al.  MACMIC Reveals A Dual Role of CTCF in Epigenetic Regulation of Cell Identity Genes.  Genomics Proteomics Bioinformatics  2021 Feb;19(1):140-153. doi:10.1016/j.gpb.2020.10.008
  13. Zhao D, Zhang L, Zhang M, Xia B, Lv J, Gao X, Wang G, Meng Q, Yi Y, Zhu S  et al.  Broad genic repression domains signify enhanced silencing of oncogenes.  Nat Commun  2020 Nov 03;11(1):5560. pii:5560
  14. de Leeuw R, Cao Q, Lam HM  Editorial: Response and Resistance in Castration-Resistant Prostate Cancer.  Front Oncol  2020;10:607298. pii:607298
  15. Li Q, Liu KY, Liu Q, Wang G, Jiang W, Meng Q, Yi Y, Yang Y, Wang R, Zhu S  et al.  Antihistamine Drug Ebastine Inhibits Cancer Growth by Targeting Polycomb Group Protein EZH2.  Mol Cancer Ther  2020 Oct;19(10):2023-2033. doi:10.1158/1535-7163.MCT-20-0250
  16. Zhang J, Lee D, Dhiman V, Jiang P, Xu J, McGillivray P, Yang H, Liu J, Meyerson W, Clarke D  et al.  An integrative ENCODE resource for cancer genomics.  Nat Commun  2020 Jul 29;11(1):3696. pii:3696
  17. Xia B, Zhao D, Wang G, Zhang M, Lv J, Tomoiaga AS, Li Y, Wang X, Meng S, Cooke JP  et al.  Machine learning uncovers cell identity regulator by histone code.  Nat Commun  2020 Jun 01;11(1):2696. pii:2696
  18. Wang G, Meng Q, Xia B, Zhang S, Lv J, Zhao D, Li Y, Wang X, Zhang L, Cooke JP  et al.  TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcription.  Genome Biol  2020 Apr 02;21(1):84. pii:84
  19. Zhu S, Zhao D, Li C, Li Q, Jiang W, Liu Q, Wang R, Fazli L, Li Y, Zhang L  et al.  BMI1 is directly regulated by androgen receptor to promote castration-resistance in prostate cancer.  Oncogene  2020 Jan;39(1):17-29. doi:10.1038/s41388-019-0966-4
  20. Li F, Yi Y, Miao Y, Long W, Long T, Chen S, Cheng W, Zou C, Zheng Y, Wu X  et al.  N6-Methyladenosine Modulates Nonsense-Mediated mRNA Decay in Human Glioblastoma.  Cancer Res  2019 Nov 15;79(22):5785-5798. doi:10.1158/0008-5472.CAN-18-2868
  21. Liu Q, Wang G, Li Q, Jiang W, Kim JS, Wang R, Zhu S, Wang X, Yan L, Yi Y  et al.  Polycomb group proteins EZH2 and EED directly regulate androgen receptor in advanced prostate cancer.  Int J Cancer  2019 Jul 15;145(2):415-426. doi:10.1002/ijc.32118
  22. Long Z, Li Y, Gan Y, Zhao D, Wang G, Xie N, Lovnicki JM, Fazli L, Cao Q, Chen K  et al.  Roles of the HOXA10 gene during castrate-resistant prostate cancer progression.  Endocr Relat Cancer  2019 Mar 01;26(3):279-292. doi:10.1530/ERC-18-0465
  23. 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 04;25(10):2808-2820.e4. doi:10.1016/j.celrep.2018.11.035
  24. Zhu S, Zhao D, Yan L, Jiang W, Kim JS, Gu B, Liu Q, Wang R, Xia B, Zhao JC  et al.  BMI1 regulates androgen receptor in prostate cancer independently of the polycomb repressive complex 1.  Nat Commun  2018 Feb 05;9(1):500. pii:500