TitleAssociate Professor
InstitutionMD Anderson
DepartmentEpigenetics & Molecular Carcinogenesis
Address6767 Bertner St
Houston TX 77030-2603
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Shen X, Wang R, Kim MJ, Hu Q, Hsu CC, Yao J, Klages-Mundt N, Tian Y, Lynn E, Brewer TF, Zhang Y, Arun B, Gan B, Andreeff M, Takeda S, Chen J, Park JI, Shi X, Chang CJ, Jung SY, Qin J, Li L. A Surge of DNA Damage Links Transcriptional Reprogramming and Hematopoietic Deficit in Fanconi Anemia. Mol Cell. 2020 12 17; 80(6):1013-1024.e6. PMID: 33338401; PMCID: PMC8600940.
      Citations: 9     Fields:    Translation:HumansCells
    2. He W, Zhang L, Villarreal OD, Fu R, Bedford E, Dou J, Patel AY, Bedford MT, Shi X, Chen T, Bartholomew B, Xu H. Author Correction: De novo identification of essential protein domains from CRISPR-Cas9 tiling-sgRNA knockout screens. Nat Commun. 2020 Feb 25; 11(1):1134. PMID: 32098955; PMCID: PMC7042308.
      Citations:    Fields:    
    3. Chen Y, Fang R, Yue C, Chang G, Li P, Guo Q, Wang J, Zhou A, Zhang S, Fuller GN, Shi X, Huang S. Wnt-Induced Stabilization of KDM4C Is Required for Wnt/?-Catenin Target Gene Expression and Glioblastoma Tumorigenesis. Cancer Res. 2020 03 01; 80(5):1049-1063. PMID: 31888886; PMCID: PMC7360480.
      Citations: 18     Fields:    Translation:HumansCells
    4. He W, Zhang L, Villarreal OD, Fu R, Bedford E, Dou J, Patel AY, Bedford MT, Shi X, Chen T, Bartholomew B, Xu H. De novo identification of essential protein domains from CRISPR-Cas9 tiling-sgRNA knockout screens. Nat Commun. 2019 Oct 04; 10(1):4541. PMID: 31586052; PMCID: PMC6778102.
      Citations: 12     Fields:    Translation:HumansCells
    5. Gao G, Zhang L, Villarreal OD, He W, Su D, Bedford E, Moh P, Shen J, Shi X, Bedford MT, Xu H. PRMT1 loss sensitizes cells to PRMT5 inhibition. Nucleic Acids Res. 2019 06 04; 47(10):5038-5048. PMID: 30916320; PMCID: PMC6547413.
      Citations: 29     Fields:    Translation:HumansAnimalsCells
    6. Mi W, Zhang Y, Lyu J, Wang X, Tong Q, Peng D, Xue Y, Tencer AH, Wen H, Li W, Kutateladze TG, Shi X. The ZZ-type zinc finger of ZZZ3 modulates the ATAC complex-mediated histone acetylation and gene activation. Nat Commun. 2018 09 14; 9(1):3759. PMID: 30217978; PMCID: PMC6138639.
      Citations: 23     Fields:    Translation:HumansCells
    7. Hsu CC, Zhao D, Shi J, Peng D, Guan H, Li Y, Huang Y, Wen H, Li W, Li H, Shi X. Gas41 links histone acetylation to H2A.Z deposition and maintenance of embryonic stem cell identity. Cell Discov. 2018; 4:28. PMID: 29900004; PMCID: PMC5995911.
      Citations: 17     
    8. Shi L, Shi J, Shi X, Li W, Wen H. Histone H3.3 G34 Mutations Alter Histone H3K36 and H3K27 Methylation In Cis. J Mol Biol. 2018 05 25; 430(11):1562-1565. PMID: 29689253; PMCID: PMC6450091.
      Citations: 28     Fields:    Translation:HumansCells
    9. Xi Y, Shi J, Li W, Tanaka K, Allton KL, Richardson D, Li J, Franco HL, Nagari A, Malladi VS, Coletta LD, Simper MS, Keyomarsi K, Shen J, Bedford MT, Shi X, Barton MC, Kraus WL, Li W, Dent SYR. Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes. BMC Genomics. 2018 02 20; 19(1):150. PMID: 29458327; PMCID: PMC5819162.
      Citations: 25     Fields:    Translation:HumansCells
    10. Hsu CC, Shi J, Yuan C, Zhao D, Jiang S, Lyu J, Wang X, Li H, Wen H, Li W, Shi X. Recognition of histone acetylation by the GAS41 YEATS domain promotes H2A.Z deposition in non-small cell lung cancer. Genes Dev. 2018 01 01; 32(1):58-69. PMID: 29437725; PMCID: PMC5828395.
      Citations: 30     Fields:    Translation:HumansCells
    11. Shi L, Wen H, Shi X. The Histone Variant H3.3 in Transcriptional Regulation and Human Disease. J Mol Biol. 2017 06 30; 429(13):1934-1945. PMID: 27894815; PMCID: PMC5446305.
      Citations: 16     Fields:    Translation:HumansCells
    12. Li N, Li Y, Lv J, Zheng X, Wen H, Shen H, Zhu G, Chen TY, Dhar SS, Kan PY, Wang Z, Shiekhattar R, Shi X, Lan F, Chen K, Li W, Li H, Lee MG. ZMYND8 Reads the Dual Histone Mark H3K4me1-H3K14ac to Antagonize the Expression of Metastasis-Linked Genes. Mol Cell. 2016 08 04; 63(3):470-84. PMID: 27477906; PMCID: PMC4975651.
      Citations: 55     Fields:    Translation:HumansAnimalsCells
    13. Zhang X, Peng D, Xi Y, Yuan C, Sagum CA, Klein BJ, Tanaka K, Wen H, Kutateladze TG, Li W, Bedford MT, Shi X. G9a-mediated methylation of ERa links the PHF20/MOF histone acetyltransferase complex to hormonal gene expression. Nat Commun. 2016 Mar 10; 7:10810. PMID: 26960573; PMCID: PMC4792926.
      Citations: 28     Fields:    Translation:HumansCells
    14. 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. Broad H3K4me3 is associated with increased transcription elongation and enhancer activity at tumor-suppressor genes. Nat Genet. 2015 Oct; 47(10):1149-57. PMID: 26301496; PMCID: PMC4780747.
      Citations: 130     Fields:    Translation:HumansCells
    15. Zhang X, Huang Y, Shi X. Emerging roles of lysine methylation on non-histone proteins. Cell Mol Life Sci. 2015 Nov; 72(22):4257-72. PMID: 26227335.
      Citations: 58     Fields:    Translation:HumansAnimalsCells
    16. Wen H, Li Y, Li H, Shi X. ZMYND11: an H3.3-specific reader of H3K36me3. Cell Cycle. 2014; 13(14):2153-4. PMID: 24963723.
      Citations: 10     Fields:    Translation:HumansAnimalsCells
    17. Wen H, Li Y, Xi Y, Jiang S, Stratton S, Peng D, Tanaka K, Ren Y, Xia Z, Wu J, Li B, Barton MC, Li W, Li H, Shi X. ZMYND11 links histone H3.3K36me3 to transcription elongation and tumour suppression. Nature. 2014 Apr 10; 508(7495):263-8. PMID: 24590075; PMCID: PMC4142212.
      Citations: 147     Fields:    Translation:HumansAnimalsCells
    18. Jiang Y, Trescott L, Holcomb J, Zhang X, Brunzelle J, Sirinupong N, Shi X, Yang Z. Structural insights into estrogen receptor a methylation by histone methyltransferase SMYD2, a cellular event implicated in estrogen signaling regulation. J Mol Biol. 2014 Oct 09; 426(20):3413-25. PMID: 24594358.
      Citations: 25     Fields:    Translation:HumansCells
    19. Klein BJ, Piao L, Xi Y, Rincon-Arano H, Rothbart SB, Peng D, Wen H, Larson C, Zhang X, Zheng X, Cortazar MA, Mangan A, Bentley DL, Strahl BD, Groudine M, Li W, Shi X, Kutateladze TG, Pe?a PV. The histone-H3K4-specific demethylase KDM5B binds to its substrate and product through distinct PHD fingers. Cell Rep. 2014 Jan 30; 6(2):325-35. PMID: 24412361; PMCID: PMC3918441.
      Citations: 77     Fields:    Translation:HumansCells
    20. Poplawski A, Hu K, Lee W, Natesan S, Peng D, Carlson S, Shi X, Balaz S, Markley JL, Glass KC. Molecular insights into the recognition of N-terminal histone modifications by the BRPF1 bromodomain. J Mol Biol. 2014 Apr 17; 426(8):1661-76. PMID: 24333487; PMCID: PMC3969779.
      Citations: 34     Fields:    Translation:HumansCells
    21. Zhang X, Tanaka K, Yan J, Li J, Peng D, Jiang Y, Yang Z, Barton MC, Wen H, Shi X. Regulation of estrogen receptor a by histone methyltransferase SMYD2-mediated protein methylation. Proc Natl Acad Sci U S A. 2013 Oct 22; 110(43):17284-9. PMID: 24101509; PMCID: PMC3808627.
      Citations: 73     Fields:    Translation:HumansCells
    22. Zhang H, Ma ZY, Zeng L, Tanaka K, Zhang CJ, Ma J, Bai G, Wang P, Zhang SW, Liu ZW, Cai T, Tang K, Liu R, Shi X, He XJ, Zhu JK. DTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV. Proc Natl Acad Sci U S A. 2013 May 14; 110(20):8290-5. PMID: 23637343; PMCID: PMC3657815.
      Citations: 82     Fields:    Translation:AnimalsCells
    23. Dhar SS, Lee SH, Kan PY, Voigt P, Ma L, Shi X, Reinberg D, Lee MG. Trans-tail regulation of MLL4-catalyzed H3K4 methylation by H4R3 symmetric dimethylation is mediated by a tandem PHD of MLL4. Genes Dev. 2012 Dec 15; 26(24):2749-62. PMID: 23249737; PMCID: PMC3533079.
      Citations: 91     Fields:    Translation:HumansCells
    24. Wang J, Leung JW, Gong Z, Feng L, Shi X, Chen J. PHF6 regulates cell cycle progression by suppressing ribosomal RNA synthesis. J Biol Chem. 2013 Feb 01; 288(5):3174-83. PMID: 23229552; PMCID: PMC3561539.
      Citations: 44     Fields:    Translation:HumansCells
    25. Brien GL, Gambero G, O'Connell DJ, Jerman E, Egan CM, Dunne EJ, Jurgens MC, Wynne K, Piao L, Lohan AJ, Ferguson N, Shi X, Sinha KM, Loftus BJ, Cagney G, Bracken AP, Turner SA. Polycomb PHF19 binds H3K36me3 and recruits PRC2 and demethylase NO66 to embryonic stem cell genes during differentiation. Nat Struct Mol Biol. 2012 Dec; 19(12):1273-81. PMID: 23160351.
      Citations: 117     Fields:    Translation:AnimalsCells
    26. Calnan DR, Webb AE, White JL, Stowe TR, Goswami T, Shi X, Espejo A, Bedford MT, Gozani O, Gygi SP, Brunet A. Methylation by Set9 modulates FoxO3 stability and transcriptional activity. Aging (Albany NY). 2012 Jul; 4(7):462-79. PMID: 22820736; PMCID: PMC3433933.
      Citations: 41     Fields:    Translation:HumansAnimalsCells
    27. Qian W, Miki D, Zhang H, Liu Y, Zhang X, Tang K, Kan Y, La H, Li X, Li S, Zhu X, Shi X, Zhang K, Pontes O, Chen X, Liu R, Gong Z, Zhu JK. A histone acetyltransferase regulates active DNA demethylation in Arabidopsis. Science. 2012 Jun 15; 336(6087):1445-8. PMID: 22700931; PMCID: PMC3575687.
      Citations: 102     Fields:    Translation:AnimalsCells
    28. Zhang X, Wen H, Shi X. Lysine methylation: beyond histones. Acta Biochim Biophys Sin (Shanghai). 2012 Jan; 44(1):14-27. PMID: 22194010.
      Citations: 88     Fields:    Translation:HumansAnimalsCells
    29. Kuo AJ, Cheung P, Chen K, Zee BM, Kioi M, Lauring J, Xi Y, Park BH, Shi X, Garcia BA, Li W, Gozani O. NSD2 links dimethylation of histone H3 at lysine 36 to oncogenic programming. Mol Cell. 2011 Nov 18; 44(4):609-20. PMID: 22099308; PMCID: PMC3222870.
      Citations: 198     Fields:    Translation:HumansAnimalsCells
    30. Tsai WW, Wang Z, Yiu TT, Akdemir KC, Xia W, Winter S, Tsai CY, Shi X, Schwarzer D, Plunkett W, Aronow B, Gozani O, Fischle W, Hung MC, Patel DJ, Barton MC. TRIM24 links a non-canonical histone signature to breast cancer. Nature. 2010 Dec 16; 468(7326):927-32. PMID: 21164480; PMCID: PMC3058826.
      Citations: 205     Fields:    Translation:HumansCells
    31. Levy D, Kuo AJ, Chang Y, Schaefer U, Kitson C, Cheung P, Espejo A, Zee BM, Liu CL, Tangsombatvisit S, Tennen RI, Kuo AY, Tanjing S, Cheung R, Chua KF, Utz PJ, Shi X, Prinjha RK, Lee K, Garcia BA, Bedford MT, Tarakhovsky A, Cheng X, Gozani O. Lysine methylation of the NF-?B subunit RelA by SETD6 couples activity of the histone methyltransferase GLP at chromatin to tonic repression of NF-?B signaling. Nat Immunol. 2011 Jan; 12(1):29-36. PMID: 21131967; PMCID: PMC3074206.
      Citations: 140     Fields:    Translation:HumansCells
    32. West LE, Roy S, Lachmi-Weiner K, Hayashi R, Shi X, Appella E, Kutateladze TG, Gozani O. The MBT repeats of L3MBTL1 link SET8-mediated p53 methylation at lysine 382 to target gene repression. J Biol Chem. 2010 Nov 26; 285(48):37725-32. PMID: 20870725; PMCID: PMC2988377.
      Citations: 47     Fields:    Translation:HumansCells
    33. Kleine-Kohlbrecher D, Christensen J, Vandamme J, Abarrategui I, Bak M, Tommerup N, Shi X, Gozani O, Rappsilber J, Salcini AE, Helin K. A functional link between the histone demethylase PHF8 and the transcription factor ZNF711 in X-linked mental retardation. Mol Cell. 2010 Apr 23; 38(2):165-78. PMID: 20346720; PMCID: PMC2989439.
      Citations: 105     Fields:    Translation:HumansCells
    34. Wen H, Li J, Song T, Lu M, Kan PY, Lee MG, Sha B, Shi X. Recognition of histone H3K4 trimethylation by the plant homeodomain of PHF2 modulates histone demethylation. J Biol Chem. 2010 Mar 26; 285(13):9322-9326. PMID: 20129925; PMCID: PMC2843180.
      Citations: 65     Fields:    Translation:HumansAnimalsCells
    35. McCord RA, Michishita E, Hong T, Berber E, Boxer LD, Kusumoto R, Guan S, Shi X, Gozani O, Burlingame AL, Bohr VA, Chua KF. SIRT6 stabilizes DNA-dependent protein kinase at chromatin for DNA double-strand break repair. Aging (Albany NY). 2009 Jan 15; 1(1):109-21. PMID: 20157594; PMCID: PMC2815768.
      Citations: 148     Fields:    Translation:HumansCells
    36. Kachirskaia I, Shi X, Yamaguchi H, Tanoue K, Wen H, Wang EW, Appella E, Gozani O. Role for 53BP1 Tudor domain recognition of p53 dimethylated at lysine 382 in DNA damage signaling. J Biol Chem. 2008 Dec 12; 283(50):34660-6. PMID: 18840612; PMCID: PMC2596381.
      Citations: 41     Fields:    Translation:HumansCells
    37. Zhang H, Shi X, Rao NN, Kornberg A, G?mez-Garc?a MR. Polyphosphate kinase 1, a conserved bacterial enzyme, in a eukaryote, Dictyostelium discoideum, with a role in cytokinesis. Proc Natl Acad Sci U S A. 2007 Oct 16; 104(42):16486-91. PMID: 17940044; PMCID: PMC2034253.
      Citations: 27     Fields:    Translation:AnimalsCells
    38. Shi X, Kachirskaia I, Yamaguchi H, West LE, Wen H, Wang EW, Dutta S, Appella E, Gozani O. Modulation of p53 function by SET8-mediated methylation at lysine 382. Mol Cell. 2007 Aug 17; 27(4):636-46. PMID: 17707234; PMCID: PMC2693209.
      Citations: 215     Fields:    Translation:HumansCells
    39. Lan F, Collins RE, De Cegli R, Alpatov R, Horton JR, Shi X, Gozani O, Cheng X, Shi Y. Recognition of unmethylated histone H3 lysine 4 links BHC80 to LSD1-mediated gene repression. Nature. 2007 Aug 09; 448(7154):718-22. PMID: 17687328; PMCID: PMC2702779.
      Citations: 230     Fields:    Translation:HumansCells
    40. Huang W, Zhang H, Davrazou F, Kutateladze TG, Shi X, Gozani O, Prestwich GD. Stabilized phosphatidylinositol-5-phosphate analogues as ligands for the nuclear protein ING2: chemistry, biology, and molecular modeling. J Am Chem Soc. 2007 May 23; 129(20):6498-506. PMID: 17469822; PMCID: PMC2553394.
      Citations: 19     Fields:    Translation:HumansCells
    41. Shi X, Kachirskaia I, Walter KL, Kuo JH, Lake A, Davrazou F, Chan SM, Martin DG, Fingerman IM, Briggs SD, Howe L, Utz PJ, Kutateladze TG, Lugovskoy AA, Bedford MT, Gozani O. Proteome-wide analysis in Saccharomyces cerevisiae identifies several PHD fingers as novel direct and selective binding modules of histone H3 methylated at either lysine 4 or lysine 36. J Biol Chem. 2007 Jan 26; 282(4):2450-5. PMID: 17142463; PMCID: PMC2735445.
      Citations: 132     Fields:    Translation:AnimalsCells
    42. Martin DG, Baetz K, Shi X, Walter KL, MacDonald VE, Wlodarski MJ, Gozani O, Hieter P, Howe L. The Yng1p plant homeodomain finger is a methyl-histone binding module that recognizes lysine 4-methylated histone H3. Mol Cell Biol. 2006 Nov; 26(21):7871-9. PMID: 16923967; PMCID: PMC1636756.
      Citations: 90     Fields:    Translation:AnimalsCells
    43. Davrazou F, Shi X, Walter KL, Verkhusha VV, Gozani O, Zhao R, Kutateladze TG, Pe?a PV. Molecular mechanism of histone H3K4me3 recognition by plant homeodomain of ING2. Nature. 2006 Jul 06; 442(7098):100-3. PMID: 16728977; PMCID: PMC3190580.
      Citations: 314     Fields:    Translation:AnimalsCells
    44. Shi X, Hong T, Walter KL, Ewalt M, Michishita E, Hung T, Carney D, Lan F, Kaadige MR, Lacoste N, Cayrou C, Davrazou F, Saha A, Cairns BR, Ayer DE, Kutateladze TG, Shi Y, Chua KF, Gozani O, Pe?a P, C?t? J. ING2 PHD domain links histone H3 lysine 4 methylation to active gene repression. Nature. 2006 Jul 06; 442(7098):96-9. PMID: 16728974; PMCID: PMC3089773.
      Citations: 439     Fields:    Translation:Cells
    45. Shi X, Gozani O. The fellowships of the INGs. J Cell Biochem. 2005 Dec 15; 96(6):1127-36. PMID: 16167330.
      Citations: 18     Fields:    Translation:HumansAnimalsCells
    46. Shi X, Kornberg A. Endopolyphosphatase in Saccharomyces cerevisiae undergoes post-translational activations to produce short-chain polyphosphates. FEBS Lett. 2005 Mar 28; 579(9):2014-8. PMID: 15792812.
      Citations: 13     Fields:    Translation:AnimalsCells
    47. Shi X, Rao NN, Kornberg A. Inorganic polyphosphate in Bacillus cereus: motility, biofilm formation, and sporulation. Proc Natl Acad Sci U S A. 2004 Dec 07; 101(49):17061-5. PMID: 15572452; PMCID: PMC535361.
      Citations: 44     Fields:    Translation:Cells
    48. TRIM24 links glucose metabolism with transformation of human mammary epithelial cells. Oncogene.
    49. PHF20 Readers Link Methylation of Histone H3K4 and p53 with H4K16 Acetylation. Cell Reports. 17:1158-1170.
    50. ZMYND8 Reads the Dual Histone Mark H3K4me1-H3K14ac to Antagonize the Expression of Metastasis-Linked Genes. Molecular Cell.
    51. The Histone Variant H3.3 in Transcriptional Regulation and Human Disease. Journal of Molecular Biology.
    52. Histone H3K4 methylation regulates deactivation of the spindle assembly checkpoint through direct binding of Mad2. Genes and Development. 30:1187-1197.
    53. Molecular Coupling of Histone Crotonylation and Active Transcription by AF9 YEATS Domain. Molecular Cell. 62:181-193.
    54. YEATS2 is a selective histone crotonylation reader. Cell Research. 26:629-632.
    55. The Taf14 YEATS domain is a reader of histone crotonylation. Nature Chemical Biology. 12:396-398.
    56. G9a-mediated methylation of ERα links the PHF20/MOF histone acetyltransferase complex to hormonal gene expression. Nature Communications. 7.
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