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SEA version 3.0: a comprehensive extension and update of the Super-Enhancer archive. Chen C, Zhou D, Gu Y, Wang C, Zhang M, Lin X, Xing J, Wang H, Zhang Y(通讯作者). Nucleic Acids Res. 2020 Jan 8;48(D1):D198-D203.
Feature article: The signature of pharmaceutical sensitivity based on ctDNA mutation in eleven cancers. Zhang S, Su M, Sun Z, Lu H, Zhang Y (通讯作者). Exp Biol Med (Maywood). 2020 Apr;245(8):720-732.
Prediction of circRNAs Based on the DNA Methylation-Mediated Feature Sponge Function in Breast Cancer. Gu Y, Ci C, Zhang X, Su M, Lv W, Chen C, Liu H, Zhang D, Zhang S, Zhang Y(通讯作者). Front Bioeng Biotechnol. 2019 Nov 26;7:365.
An analysis about heterogeneity among cancers based on the DNA methylation patterns. Liu Y, Gu Y, Su M, Liu H, Zhang S, Zhang Y(通讯作者). BMC Cancer. 2019 Dec 30;19(1):1259.
Development of a method for identifying and functionally analyzing allele-specific DNA methylation based on BS-seq data. Zhu J, Su M, Gu Y, Zhang X, Lv W, Zhang S, Sun Z, Lu H, Zhang Y(通讯作者). Epigenomics. 2019 Nov 1;11(15):1679-1692.
Specific breast cancer prognosis-subtype distinctions based on DNA methylation patterns. ZhangS, Wang Y, Gu Y, Zhu J, Ci C, Guo Z, Chen C, Wei Y, Lv W, Liu H, Zhang D, Zhang Y(通讯作者). MolOncol. 2018 Jun; 12(7):1047-1060.
Exploration of drug-response mechanism by integrating genetics and epigenetics across cancers. Lv W, Zhang M, Zhu J, Zhang M, Ci C, Shang S, Wei Y, Liu H, Li X, Zhang Y(通讯作者). Epigenomics. 2018 Jul;10(7):993-1010.
DiseaseMeth version 2.0: a major expansion and update of the human disease methylation database. Xiong Y, Wei Y, Gu Y, Zhang S, Lyu J, Zhang B, Chen C, Zhu J, Wang Y, Liu H, ZhangY(通讯作者). Nucleic Acids Research. 2017 Jan 4;45(D1):D888-D895
Cell subpopulation deconvolution reveals breast cancer heterogeneity based on DNA methylationsignature. Wen Y, Wei Y, Zhang S, Li S, Liu H, Wang F, Zhao Y, Zhang D, Zhang Y(通讯作者).Brief Bioinform. 2017;1;18(3):426-440
DNA methylation dynamics: identification and functional annotation. Liu H, Li S, Wang X, Zhu J, Wei Y, Wang Y, Wen Y, Wang L, Huang Y, Zhang B, Shang S, Zhang Y(通讯作者). Brief Funct Genomics. 2016 Nov;15(6):470-484.
The identification of age-associated cancer markers by an integrative analysis of dynamic DNA methylation changes. Wang Y, Zhang J, Xiao X, Liu H, Wang F, Li S, Wen Y, Wei Y, Su J, Zhang Y, Zhang Y(通讯作者). Sci Rep. 2016 Mar 7;6:22723
SEA: a comprehensive SuperEnhancer Archive. Wei Y, Zhang S, Shang S, Zhang B, Wang X, Li S, Liu H, Zhang Y(通讯作者).Nucleic Acids Research. 2016 Jan 4;44(D1):D172-9.
Systematic identificationand annotation of human methylation marks based on bisulfite sequencing methylomes revealsdistinct roles of cell-type-specific hypomethylation in regulation of cell identify genes. Liu H, Liu X, Zhang S, Lv J, Li S, Shang S, Jia S, Wei Y, Wang F, Su J , Zhang Y(通讯作者): Nucleic Acids Research. 2016 Jan 8;44(1):75-94.
CellMethy: Identification of a focal concordantly methylated pattern of CpGs revealed wide differences between normal and cancer tissues.Wang F, Zhang S, Liu H, Wei Y, Wang Y, Han X, Su J, Zhang D, Xie B, Zhang Y(通讯作者). Sci Rep. 2015 Dec 10;5:18037.
Chromatin modifications and genomic contexts linked to dynamic DNA methylation patterns across human cell types.Yan H, Zhang D, Liu H, Wei Y, Lv J, Wang F, Zhang C, Wu Q, Su J, Zhang Y(通讯作者).Sci Rep. 2015 Feb 12;5:8410
MetaImprint: an information repository of mammalian imprinted genes.Wei Y, Su J, Liu H, Lv J, Wang F, Yan H, Wen Y, Liu H, Wu Q, Zhang Y(通讯作者).Development. 2014 Jun;141(12):2516-23.
Revealing the architecture of genetic and epigenetic regulation: a maximum likelihood model. Wang F, Zhang S, Wen Y, Wei Y, Yan H, Liu H, Su J, Zhang Y(通讯作者), Che J. Brief Bioinform. 2014 Nov;15(6):1028-43.
CpG_MPs: identification of CpG methylation patterns of genomic regions from highthroughput bisulfite sequencing data.Su J, Yan H, Wei Y, Liu H, Liu H, Wang F, Lv J, Wu Q, Zhang Y(通讯作者).Nucleic Acids Res. 2013 Jan 7;41(1):e4.
DiseaseMeth: a human disease methylation database.Lv J, Liu H, Su J, Wu X, Liu H, Li B, Xiao X, Wang F, Wu Q, Zhang Y(通讯作者).Nucleic Acids Res. 2012 Jan;40(Database issue):D1030-5. *20) QDMR: a quantitative method for identification of differentially methylated regions by entropy.Zhang Y(第一作者，通讯作者), Liu H, Lv J, Xiao X, Zhu J, Liu X, Su J, Li X, Wu Q, Wang F, Cui Y. Nucleic Acids Res. 2011 May;39(9):e58.
HHMD: the human histone modification database.Zhang Y(第一作者，通讯作者), Lv J, Liu H, Zhu J, Su J, Wu Q, Qi Y, Wang F, Li X.Nucleic Acids Res. 2010 Jan;38(Database issue):D149-54.
CpG_MI: a novel approach for identifying functional CpG islands in mammalian genomes. Su J, Zhang Y(通讯作者), Lv J, Liu H, Tang X, Wang F, Qi Y, Feng Y, Li X.Nucleic Acids Res. 2010 Jan;38(1):e6.
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