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Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity.
Song L, Zhang Z, Grasfeder LL, Boyle AP, Giresi PG, Lee BK, Sheffield NC, Gräf S, Huss M, Keefe D, Liu Z, London D, McDaniell RM, Shibata Y, Showers KA, Simon JM, Vales T, Wang T, Winter D, Zhang Z, Clarke ND, Birney E, Iyer VR, Crawford GE, Lieb JD, Furey TS. Song L, et al. Among authors: shibata y. Genome Res. 2011 Oct;21(10):1757-67. doi: 10.1101/gr.121541.111. Epub 2011 Jul 12. Genome Res. 2011. PMID: 21750106 Free PMC article.
Extensive evolutionary changes in regulatory element activity during human origins are associated with altered gene expression and positive selection.
Shibata Y, Sheffield NC, Fedrigo O, Babbitt CC, Wortham M, Tewari AK, London D, Song L, Lee BK, Iyer VR, Parker SC, Margulies EH, Wray GA, Furey TS, Crawford GE. Shibata Y, et al. PLoS Genet. 2012 Jun;8(6):e1002789. doi: 10.1371/journal.pgen.1002789. Epub 2012 Jun 28. PLoS Genet. 2012. PMID: 22761590 Free PMC article.
Genome-wide identification of regulatory elements in Sertoli cells.
Maatouk DM, Natarajan A, Shibata Y, Song L, Crawford GE, Ohler U, Capel B. Maatouk DM, et al. Among authors: shibata y. Development. 2017 Feb 15;144(4):720-730. doi: 10.1242/dev.142554. Epub 2017 Jan 13. Development. 2017. PMID: 28087634 Free PMC article.
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration.
Wu W, Cheng Y, Keller CA, Ernst J, Kumar SA, Mishra T, Morrissey C, Dorman CM, Chen KB, Drautz D, Giardine B, Shibata Y, Song L, Pimkin M, Crawford GE, Furey TS, Kellis M, Miller W, Taylor J, Schuster SC, Zhang Y, Chiaromonte F, Blobel GA, Weiss MJ, Hardison RC. Wu W, et al. Among authors: shibata y. Genome Res. 2011 Oct;21(10):1659-71. doi: 10.1101/gr.125088.111. Epub 2011 Jul 27. Genome Res. 2011. PMID: 21795386 Free PMC article.
2,788 results