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Shi YJ, Sawada J, Sui G, Affar el B, Whetstine JR, Lan F, Ogawa H, Luke MP, Nakatani Y, Shi Y. Coordinated histone modifications mediated by a CtBP co-repressor complex. Nature. 2003; 422:735-8.
Shi YJ, Lan F, Matson C, Mulligan P, Whetstine JR, Cole PA, Casero RA, Shi Y. Histone demethylation mediated by the nuclear amine oxidase homolog LSD1. Cell. 2004; 119:941-953.
Sui G, Affar EB*, Shi YJ*, Brignone C, Wall NR, Yin P, Donohoe P, Calvo P, Luke MP, Grossman SR, Shi Y. Yin Yang 1 is a negative regulator of p53. Cell. 2004; 117:859-87. * Co- second author.
Shi YJ, Matson C, Lan F, Iwase S, Baba T, Shi Y. Regulation of LSD1 Histone Demethylase Activity by Its Associated Factors. Mol Cell. 2005. 19(6):857-64
Tahiliani M, Mei P, Fang R, Leonor T, Rutenberg M, Shimizu F, Li J, Rao A and Shi YJ. The histone H3K4 demethylase SMCX links REST target genes to X-linked mental retardation. Nature. 2007, 447(7144):601-5.
Fang R, Barbera AJ, Xu Y, Rutenberg M, Leonor T, Bi Q, Lan F, Mei P, Yuan GC, Lian C, Peng J, Cheng D, Sui G, Kaiser UB, Shi YJ. Human LSD2/KDM1b/AOF1 regulates gene transcription by modulating intragenic H3K4me2 methylation. Mol Cell. 2010, 39(2):222-33.
Zhang H, Zhang X, Clark E, Mulcahey M, Huang S, Shi YJ. TET1 is a DNA-binding protein that modulates DNA methylation and gene transcription via hydroxylation of 5-methylcytosine. Cell Res. 2010 Dec; 20(12):1390-3.
Xu Y, Wu F, Tan L, Kong L, Xiong L, Deng J, Barbera AJ, Shi YJ. Genome-wide Regulation of 5hmC, 5mC, and Gene Expression by Tet1 Hydroxylase in Mouse Embryonic Stem Cells. Mol Cell. 2011, 42(4):451-64.
Lian CG, Xu Y, Ceol C, Wu F, Larson A, Dresser K, Xu W, Tan L, Hu Y, Zhan Q, Lee CW, Hu D, Lian BQ, Kleffel S, Yang Y, Neiswender J, Khorasani AJ, Fang R, Lezcano C, Duncan LM, Scolyer RA, Thompson JF, Kakavand H, Houvras Y, Zon LI, Mihm MC Jr, Kaiser UB, Schatton T, Woda BA, Murphy GF, Shi YJ. Loss of 5-hydroxymethylcytosine is an epigenetic hallmark of melanoma. Cell. 2012 Sep 14; 150(6):1135-46.
Xu Y, Xu C, Kato A, Tempel W, Abreu JG, Bian C, Hu Y, Hu D, Zhao B, Cerovina T, Diao J, Wu F, He HH, Cui Q, Clark E, Ma C, Barbara A, Veenstra GJ, Xu G, Kaiser UB, Liu XS, Sugrue SP, He X, Min J, Kato Y, Shi YJ. Tet3 CXXC domain and dioxygenase activity cooperatively regulate key genes for Xenopus eye and neural development. Cell, 2012, Dec 7;151(6):1200-13
Fang R, Chen F, Dong Z, Hu D, Barbera AJ, Clark EA, Fang J, Yang Y, Mei P, Rutenberg M, Li Z, Zhang Y, Xu Y, Yang H, Wang P, Simon MD, Zhou Q, Li J, Marynick MP, Li X, Lu H, Kaiser UB, Kingston RE, Xu Y, Shi YJ. LSD2/KDM1B and its cofactor NPAC/GLYR1 endow a structural and molecular model for regulation of H3K4 demethylation. Molecular Cell, 2013 Feb 7; 49(3):558-70.
Tan L, Xiong L, Xu W, Wu F, Huang N, Xu Y, Kong L, Zheng L, Schwartz L, Shi Y, Shi YJ. Genome-wide comparison of DNA hydroxymethylation in mouse embryonic stem cells and neural progenitor cells by a new comparative hMeDIP-seq method. Nucleic Acids Res. 2013 2013, 41(7):e84.
Kong L, Tan L, Lv R, Shi Z, Xiong L, Wu F, Rabidou K, Smith M, He C, Zhang L, Qian Y, Ma D, Lan F, Shi Y, Shi YJ. A primary role of TET proteins in establishment and maintenance of De Novo bivalency at CpG islands. Nucleic Acids Res. 2016 Oct 14;44(18):8682-8692. Epub 2016 Jun 10.
Di W, Di H, Hao C, Shi G, Fetahu IS, Wu F, Rabidou K, Fang R, Tan L, Xu S, Liu H, Argueta C, Zhang L, Mao F, Yan G, Chen J, Dong Z, Lv R, Xu Y, Wang M, Ye Y, Zhang S, Duquette D, Geng S, Guo C, Murphy GF, Adler G, Garg R, Lynch L, Yang P, Li Y, Lan F, Fan J, Shi Y, Shi YJ. The Glucose/AMPK/TET2/5hmC axis constitutes a new pathway linking diabetes to cancer. Nature, 2018, Jul; 559 (7715):637-641.
Chen H, Yu D, Fang R, Rabidou K, Wu D, Hu D, Jia P, Zhao Z, Wu Z, Peng J, Shi Y, Shi YJ. TET2 stabilization by 14-3-3 binding to the phosphorylated Serine 99 is deregulated by mutations in cancer. Cell Res. 2019, Mar;29(3):248-250.
Clark EA, Wu F, Chen Y, Kang P, Kaiser UB, Fang R, Shi YJ. GR and LSD1/KDM1A- Targeted Gene Activation Requires Selective H3K4me2 Demethylation at Enhancers. Cell Rep. 2019, 18;27(12):3522-3532.
Fetahu IS, Ma D, Rabidou K, Argueta C, Smith M, Liu H, Wu F, Shi YJ. Epigenetic Signatures of methylated DNA Cytosine in Alzheimer’s Disease. Science Adv. 2019 Aug 28;5(8):eaaw2880.
Li W, Karwacki-Neisius V, Ma C, Tan L, Shi Y, Wu F, Shi YJ. Nono deficiency compromises TET1 chromatin association and impedes neuronal differentiation of mouse embryonic stem cells. Nucleic Acids Res. 2020 May 21;48(9):4827-4838.
Ma D, Fetahu IS, Wang M, Fang R, Li J, Liu H, Gramyk T, Iwanicki I, Gu S, Xu W, Tan L, Wu F, Shi YJ. The fusiform gyrus exhibits an epigenetic signature for Alzheimer's disease. Clin Epigenetics. 2020 Aug 27;12(1):129.
Li S, Feng J, Wu F, Cai J, Zhang X, Wang H, Fetahu IS, Iwanicki I, Ma D, Hu T, Liu H, Wang B, Shi G, Tan L, Shi YJ. TET2 promotes anti-tumor immunity by governing G-MDSCs and CD8+ T-cell numbers. EMBO Rep. 2020 Oct 5;21(10):e49425.
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