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Normalization, bias correction, and peak calling for ChIP-seq.
Diaz A, Park K, Lim DA, Song JS. Diaz A, et al. Among authors: song js. Stat Appl Genet Mol Biol. 2012 Mar 31;11(3):Article 9. doi: 10.1515/1544-6115.1750. Stat Appl Genet Mol Biol. 2012. PMID: 22499706 Free PMC article.
Recurrent epimutations activate gene body promoters in primary glioblastoma.
Nagarajan RP, Zhang B, Bell RJ, Johnson BE, Olshen AB, Sundaram V, Li D, Graham AE, Diaz A, Fouse SD, Smirnov I, Song J, Paris PL, Wang T, Costello JF. Nagarajan RP, et al. Genome Res. 2014 May;24(5):761-74. doi: 10.1101/gr.164707.113. Epub 2014 Apr 7. Genome Res. 2014. PMID: 24709822 Free PMC article.
Oncogenic BRAF regulates oxidative metabolism via PGC1α and MITF.
Haq R, Shoag J, Andreu-Perez P, Yokoyama S, Edelman H, Rowe GC, Frederick DT, Hurley AD, Nellore A, Kung AL, Wargo JA, Song JS, Fisher DE, Arany Z, Widlund HR. Haq R, et al. Among authors: song js. Cancer Cell. 2013 Mar 18;23(3):302-15. doi: 10.1016/j.ccr.2013.02.003. Epub 2013 Mar 7. Cancer Cell. 2013. PMID: 23477830 Free PMC article.
Systematic identification of barriers to human iPSC generation.
Qin H, Diaz A, Blouin L, Lebbink RJ, Patena W, Tanbun P, LeProust EM, McManus MT, Song JS, Ramalho-Santos M. Qin H, et al. Among authors: song js. Cell. 2014 Jul 17;158(2):449-461. doi: 10.1016/j.cell.2014.05.040. Cell. 2014. PMID: 25036638 Free PMC article.
Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets.
Johnson DS, Li W, Gordon DB, Bhattacharjee A, Curry B, Ghosh J, Brizuela L, Carroll JS, Brown M, Flicek P, Koch CM, Dunham I, Bieda M, Xu X, Farnham PJ, Kapranov P, Nix DA, Gingeras TR, Zhang X, Holster H, Jiang N, Green RD, Song JS, McCuine SA, Anton E, Nguyen L, Trinklein ND, Ye Z, Ching K, Hawkins D, Ren B, Scacheri PC, Rozowsky J, Karpikov A, Euskirchen G, Weissman S, Gerstein M, Snyder M, Yang A, Moqtaderi Z, Hirsch H, Shulha HP, Fu Y, Weng Z, Struhl K, Myers RM, Lieb JD, Liu XS. Johnson DS, et al. Among authors: song js. Genome Res. 2008 Mar;18(3):393-403. doi: 10.1101/gr.7080508. Epub 2008 Feb 7. Genome Res. 2008. PMID: 18258921 Free PMC article.
1,217 results