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Combinatorial patterns of histone acetylations and methylations in the human genome.
Wang Z, Zang C, Rosenfeld JA, Schones DE, Barski A, Cuddapah S, Cui K, Roh TY, Peng W, Zhang MQ, Zhao K. Wang Z, et al. Among authors: cuddapah s. Nat Genet. 2008 Jul;40(7):897-903. doi: 10.1038/ng.154. Epub 2008 Jun 15. Nat Genet. 2008. PMID: 18552846 Free PMC article.
Rapid Recall Ability of Memory T cells is Encoded in their Epigenome.
Barski A, Cuddapah S, Kartashov AV, Liu C, Imamichi H, Yang W, Peng W, Lane HC, Zhao K. Barski A, et al. Among authors: cuddapah s. Sci Rep. 2017 Jan 5;7:39785. doi: 10.1038/srep39785. Sci Rep. 2017. PMID: 28054639 Free PMC article.
Lineage relationship of CD8(+) T cell subsets is revealed by progressive changes in the epigenetic landscape.
Crompton JG, Narayanan M, Cuddapah S, Roychoudhuri R, Ji Y, Yang W, Patel SJ, Sukumar M, Palmer DC, Peng W, Wang E, Marincola FM, Klebanoff CA, Zhao K, Tsang JS, Gattinoni L, Restifo NP. Crompton JG, et al. Among authors: cuddapah s. Cell Mol Immunol. 2016 Jul;13(4):502-13. doi: 10.1038/cmi.2015.32. Epub 2015 Apr 27. Cell Mol Immunol. 2016. PMID: 25914936 Free PMC article.
Epigenomics of T cell activation, differentiation, and memory.
Cuddapah S, Barski A, Zhao K. Cuddapah S, et al. Curr Opin Immunol. 2010 Jun;22(3):341-7. doi: 10.1016/j.coi.2010.02.007. Epub 2010 Mar 11. Curr Opin Immunol. 2010. PMID: 20226645 Free PMC article. Review.
Pol II and its associated epigenetic marks are present at Pol III-transcribed noncoding RNA genes.
Barski A, Chepelev I, Liko D, Cuddapah S, Fleming AB, Birch J, Cui K, White RJ, Zhao K. Barski A, et al. Among authors: cuddapah s. Nat Struct Mol Biol. 2010 May;17(5):629-34. doi: 10.1038/nsmb.1806. Epub 2010 Apr 25. Nat Struct Mol Biol. 2010. PMID: 20418881 Free PMC article.
Insulators recruit histone methyltransferase dMes4 to regulate chromatin of flanking genes.
Lhoumaud P, Hennion M, Gamot A, Cuddapah S, Queille S, Liang J, Micas G, Morillon P, Urbach S, Bouchez O, Severac D, Emberly E, Zhao K, Cuvier O. Lhoumaud P, et al. Among authors: cuddapah s. EMBO J. 2014 Jul 17;33(14):1599-613. doi: 10.15252/embj.201385965. Epub 2014 Jun 10. EMBO J. 2014. PMID: 24916307 Free PMC article.
Chromatin immunoprecipitation indirect peaks highlight long-range interactions of insulator proteins and Pol II pausing.
Liang J, Lacroix L, Gamot A, Cuddapah S, Queille S, Lhoumaud P, Lepetit P, Martin PG, Vogelmann J, Court F, Hennion M, Micas G, Urbach S, Bouchez O, Nöllmann M, Zhao K, Emberly E, Cuvier O. Liang J, et al. Among authors: cuddapah s. Mol Cell. 2014 Feb 20;53(4):672-81. doi: 10.1016/j.molcel.2013.12.029. Epub 2014 Jan 30. Mol Cell. 2014. PMID: 24486021 Free PMC article.
Genomic profiling of HMGN1 reveals an association with chromatin at regulatory regions.
Cuddapah S, Schones DE, Cui K, Roh TY, Barski A, Wei G, Rochman M, Bustin M, Zhao K. Cuddapah S, et al. Mol Cell Biol. 2011 Feb;31(4):700-9. doi: 10.1128/MCB.00740-10. Epub 2010 Dec 20. Mol Cell Biol. 2011. PMID: 21173166 Free PMC article.
Chromatin poises miRNA- and protein-coding genes for expression.
Barski A, Jothi R, Cuddapah S, Cui K, Roh TY, Schones DE, Zhao K. Barski A, et al. Among authors: cuddapah s. Genome Res. 2009 Oct;19(10):1742-51. doi: 10.1101/gr.090951.109. Epub 2009 Aug 27. Genome Res. 2009. PMID: 19713549 Free PMC article.
Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains.
Cuddapah S, Jothi R, Schones DE, Roh TY, Cui K, Zhao K. Cuddapah S, et al. Genome Res. 2009 Jan;19(1):24-32. doi: 10.1101/gr.082800.108. Epub 2008 Dec 3. Genome Res. 2009. PMID: 19056695 Free PMC article.
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