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Page 1
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. Among authors: costello jf. 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.
Conserved role of intragenic DNA methylation in regulating alternative promoters.
Maunakea AK, Nagarajan RP, Bilenky M, Ballinger TJ, D'Souza C, Fouse SD, Johnson BE, Hong C, Nielsen C, Zhao Y, Turecki G, Delaney A, Varhol R, Thiessen N, Shchors K, Heine VM, Rowitch DH, Xing X, Fiore C, Schillebeeckx M, Jones SJ, Haussler D, Marra MA, Hirst M, Wang T, Costello JF. Maunakea AK, et al. Among authors: costello jf. Nature. 2010 Jul 8;466(7303):253-7. doi: 10.1038/nature09165. Nature. 2010. PMID: 20613842 Free PMC article.
Genome-scale DNA methylation analysis.
Fouse SD, Nagarajan RO, Costello JF. Fouse SD, et al. Among authors: costello jf. Epigenomics. 2010 Feb;2(1):105-17. doi: 10.2217/epi.09.35. Epigenomics. 2010. PMID: 20657796 Free PMC article. Review.
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications.
Harris RA, Wang T, Coarfa C, Nagarajan RP, Hong C, Downey SL, Johnson BE, Fouse SD, Delaney A, Zhao Y, Olshen A, Ballinger T, Zhou X, Forsberg KJ, Gu J, Echipare L, O'Geen H, Lister R, Pelizzola M, Xi Y, Epstein CB, Bernstein BE, Hawkins RD, Ren B, Chung WY, Gu H, Bock C, Gnirke A, Zhang MQ, Haussler D, Ecker JR, Li W, Farnham PJ, Waterland RA, Meissner A, Marra MA, Hirst M, Milosavljevic A, Costello JF. Harris RA, et al. Among authors: costello jf. Nat Biotechnol. 2010 Oct;28(10):1097-105. doi: 10.1038/nbt.1682. Epub 2010 Sep 19. Nat Biotechnol. 2010. PMID: 20852635 Free PMC article.
The Human Epigenome Browser at Washington University.
Zhou X, Maricque B, Xie M, Li D, Sundaram V, Martin EA, Koebbe BC, Nielsen C, Hirst M, Farnham P, Kuhn RM, Zhu J, Smirnov I, Kent WJ, Haussler D, Madden PA, Costello JF, Wang T. Zhou X, et al. Among authors: costello jf. Nat Methods. 2011 Nov 29;8(12):989-90. doi: 10.1038/nmeth.1772. Nat Methods. 2011. PMID: 22127213 Free PMC article. No abstract available.
Methods for cancer epigenome analysis.
Nagarajan RP, Fouse SD, Bell RJ, Costello JF. Nagarajan RP, et al. Among authors: costello jf. Adv Exp Med Biol. 2013;754:313-38. doi: 10.1007/978-1-4419-9967-2_15. Adv Exp Med Biol. 2013. PMID: 22956508 Free PMC article. Review.
Spark: a navigational paradigm for genomic data exploration.
Nielsen CB, Younesy H, O'Geen H, Xu X, Jackson AR, Milosavljevic A, Wang T, Costello JF, Hirst M, Farnham PJ, Jones SJ. Nielsen CB, et al. Among authors: costello jf. Genome Res. 2012 Nov;22(11):2262-9. doi: 10.1101/gr.140665.112. Epub 2012 Sep 7. Genome Res. 2012. PMID: 22960372 Free PMC article.
DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape.
Xie M, Hong C, Zhang B, Lowdon RF, Xing X, Li D, Zhou X, Lee HJ, Maire CL, Ligon KL, Gascard P, Sigaroudinia M, Tlsty TD, Kadlecek T, Weiss A, O'Geen H, Farnham PJ, Madden PA, Mungall AJ, Tam A, Kamoh B, Cho S, Moore R, Hirst M, Marra MA, Costello JF, Wang T. Xie M, et al. Among authors: costello jf. Nat Genet. 2013 Jul;45(7):836-41. doi: 10.1038/ng.2649. Epub 2013 May 26. Nat Genet. 2013. PMID: 23708189 Free PMC article.
Cancer Stem Cells Activate STAT3 the EZ Way.
Fouse SD, Costello JF. Fouse SD, et al. Among authors: costello jf. Cancer Cell. 2013 Jun 10;23(6):711-3. doi: 10.1016/j.ccr.2013.05.016. Cancer Cell. 2013. PMID: 23763996 Free PMC article.
256 results