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Results: 1 to 20 of 82

1.

Maritime route of colonization of Europe.

Paschou P, Drineas P, Yannaki E, Razou A, Kanaki K, Tsetsos F, Padmanabhuni SS, Michalodimitrakis M, Renda MC, Pavlovic S, Anagnostopoulos A, Stamatoyannopoulos JA, Kidd KK, Stamatoyannopoulos G.

Proc Natl Acad Sci U S A. 2014 Jun 24;111(25):9211-6. doi: 10.1073/pnas.1320811111. Epub 2014 Jun 9.

PMID:
24927591
[PubMed - in process]
Free PMC Article
2.

Guidelines for investigating causality of sequence variants in human disease.

MacArthur DG, Manolio TA, Dimmock DP, Rehm HL, Shendure J, Abecasis GR, Adams DR, Altman RB, Antonarakis SE, Ashley EA, Barrett JC, Biesecker LG, Conrad DF, Cooper GM, Cox NJ, Daly MJ, Gerstein MB, Goldstein DB, Hirschhorn JN, Leal SM, Pennacchio LA, Stamatoyannopoulos JA, Sunyaev SR, Valle D, Voight BF, Winckler W, Gunter C.

Nature. 2014 Apr 24;508(7497):469-76. doi: 10.1038/nature13127.

PMID:
24759409
[PubMed - in process]
3.

Defining functional DNA elements in the human genome.

Kellis M, Wold B, Snyder MP, Bernstein BE, Kundaje A, Marinov GK, Ward LD, Birney E, Crawford GE, Dekker J, Dunham I, Elnitski LL, Farnham PJ, Feingold EA, Gerstein M, Giddings MC, Gilbert DM, Gingeras TR, Green ED, Guigo R, Hubbard T, Kent J, Lieb JD, Myers RM, Pazin MJ, Ren B, Stamatoyannopoulos JA, Weng Z, White KP, Hardison RC.

Proc Natl Acad Sci U S A. 2014 Apr 29;111(17):6131-8. doi: 10.1073/pnas.1318948111. Epub 2014 Apr 21. Review.

PMID:
24753594
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Domains of genome-wide gene expression dysregulation in Down's syndrome.

Letourneau A, Santoni FA, Bonilla X, Sailani MR, Gonzalez D, Kind J, Chevalier C, Thurman R, Sandstrom RS, Hibaoui Y, Garieri M, Popadin K, Falconnet E, Gagnebin M, Gehrig C, Vannier A, Guipponi M, Farinelli L, Robyr D, Migliavacca E, Borel C, Deutsch S, Feki A, Stamatoyannopoulos JA, Herault Y, van Steensel B, Guigo R, Antonarakis SE.

Nature. 2014 Apr 17;508(7496):345-50. doi: 10.1038/nature13200.

PMID:
24740065
[PubMed - indexed for MEDLINE]
5.

Inflammation-induced repression of chromatin bound by the transcription factor Foxp3 in regulatory T cells.

Arvey A, van der Veeken J, Samstein RM, Feng Y, Stamatoyannopoulos JA, Rudensky AY.

Nat Immunol. 2014 Jun;15(6):580-7. doi: 10.1038/ni.2868. Epub 2014 Apr 13.

PMID:
24728351
[PubMed - indexed for MEDLINE]
6.

Exonic transcription factor binding directs codon choice and affects protein evolution.

Stergachis AB, Haugen E, Shafer A, Fu W, Vernot B, Reynolds A, Raubitschek A, Ziegler S, LeProust EM, Akey JM, Stamatoyannopoulos JA.

Science. 2013 Dec 13;342(6164):1367-72. doi: 10.1126/science.1243490.

PMID:
24337295
[PubMed - indexed for MEDLINE]
7.

Reduced local mutation density in regulatory DNA of cancer genomes is linked to DNA repair.

Polak P, Lawrence MS, Haugen E, Stoletzki N, Stojanov P, Thurman RE, Garraway LA, Mirkin S, Getz G, Stamatoyannopoulos JA, Sunyaev SR.

Nat Biotechnol. 2014 Jan;32(1):71-5. doi: 10.1038/nbt.2778. Epub 2013 Dec 15.

PMID:
24336318
[PubMed - in process]
8.

Coupling transcription factor occupancy to nucleosome architecture with DNase-FLASH.

Vierstra J, Wang H, John S, Sandstrom R, Stamatoyannopoulos JA.

Nat Methods. 2014 Jan;11(1):66-72. doi: 10.1038/nmeth.2713. Epub 2013 Nov 3.

PMID:
24185839
[PubMed - indexed for MEDLINE]
9.

Functionally and phenotypically distinct subpopulations of marrow stromal cells are fibroblast in origin and induce different fates in peripheral blood monocytes.

Iwata M, Sandstrom RS, Delrow JJ, Stamatoyannopoulos JA, Torok-Storb B.

Stem Cells Dev. 2014 Apr 1;23(7):729-40. doi: 10.1089/scd.2013.0300. Epub 2013 Nov 23.

PMID:
24131213
[PubMed - in process]
10.

An erythroid enhancer of BCL11A subject to genetic variation determines fetal hemoglobin level.

Bauer DE, Kamran SC, Lessard S, Xu J, Fujiwara Y, Lin C, Shao Z, Canver MC, Smith EC, Pinello L, Sabo PJ, Vierstra J, Voit RA, Yuan GC, Porteus MH, Stamatoyannopoulos JA, Lettre G, Orkin SH.

Science. 2013 Oct 11;342(6155):253-7. doi: 10.1126/science.1242088.

PMID:
24115442
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Comprehensive characterization of erythroid-specific enhancers in the genomic regions of human Kr├╝ppel-like factors.

Xiong Q, Zhang Z, Chang KH, Qu H, Wang H, Qi H, Li Y, Ruan X, Yang Y, Yang Y, Li Y, Sandstrom R, Sabo PJ, Li Q, Stamatoyannopoulos G, Stamatoyannopoulos JA, Fang X.

BMC Genomics. 2013 Aug 28;14:587. doi: 10.1186/1471-2164-14-587.

PMID:
23985037
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Developmental fate and cellular maturity encoded in human regulatory DNA landscapes.

Stergachis AB, Neph S, Reynolds A, Humbert R, Miller B, Paige SL, Vernot B, Cheng JB, Thurman RE, Sandstrom R, Haugen E, Heimfeld S, Murry CE, Akey JM, Stamatoyannopoulos JA.

Cell. 2013 Aug 15;154(4):888-903. doi: 10.1016/j.cell.2013.07.020.

PMID:
23953118
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Genome-scale mapping of DNase I hypersensitivity.

John S, Sabo PJ, Canfield TK, Lee K, Vong S, Weaver M, Wang H, Vierstra J, Reynolds AP, Thurman RE, Stamatoyannopoulos JA.

Curr Protoc Mol Biol. 2013 Jul;Chapter 27:Unit 21.27. doi: 10.1002/0471142727.mb2127s103.

PMID:
23821440
[PubMed - indexed for MEDLINE]
14.

Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding.

He X, Chatterjee R, John S, Bravo H, Sathyanarayana BK, Biddie SC, FitzGerald PC, Stamatoyannopoulos JA, Hager GL, Vinson C.

BMC Genomics. 2013 Jun 28;14:428. doi: 10.1186/1471-2164-14-428.

PMID:
23805837
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements.

Mercer TR, Edwards SL, Clark MB, Neph SJ, Wang H, Stergachis AB, John S, Sandstrom R, Li G, Sandhu KS, Ruan Y, Nielsen LK, Mattick JS, Stamatoyannopoulos JA.

Nat Genet. 2013 Aug;45(8):852-9. doi: 10.1038/ng.2677. Epub 2013 Jun 23.

PMID:
23793028
[PubMed - indexed for MEDLINE]
16.

A European population in Minoan Bronze Age Crete.

Hughey JR, Paschou P, Drineas P, Mastropaolo D, Lotakis DM, Navas PA, Michalodimitrakis M, Stamatoyannopoulos JA, Stamatoyannopoulos G.

Nat Commun. 2013;4:1861. doi: 10.1038/ncomms2871.

PMID:
23673646
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Probing DNA shape and methylation state on a genomic scale with DNase I.

Lazarovici A, Zhou T, Shafer A, Dantas Machado AC, Riley TR, Sandstrom R, Sabo PJ, Lu Y, Rohs R, Stamatoyannopoulos JA, Bussemaker HJ.

Proc Natl Acad Sci U S A. 2013 Apr 16;110(16):6376-81. doi: 10.1073/pnas.1216822110. Epub 2013 Apr 1.

PMID:
23576721
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions.

Sheffield NC, Thurman RE, Song L, Safi A, Stamatoyannopoulos JA, Lenhard B, Crawford GE, Furey TS.

Genome Res. 2013 May;23(5):777-88. doi: 10.1101/gr.152140.112. Epub 2013 Mar 12.

PMID:
23482648
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Dynamic DNA methylation across diverse human cell lines and tissues.

Varley KE, Gertz J, Bowling KM, Parker SL, Reddy TE, Pauli-Behn F, Cross MK, Williams BA, Stamatoyannopoulos JA, Crawford GE, Absher DM, Wold BJ, Myers RM.

Genome Res. 2013 Mar;23(3):555-67. doi: 10.1101/gr.147942.112. Epub 2013 Jan 16.

PMID:
23325432
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila.

Fisher WW, Li JJ, Hammonds AS, Brown JB, Pfeiffer BD, Weiszmann R, MacArthur S, Thomas S, Stamatoyannopoulos JA, Eisen MB, Bickel PJ, Biggin MD, Celniker SE.

Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21330-5. doi: 10.1073/pnas.1209589110. Epub 2012 Dec 10.

PMID:
23236164
[PubMed - indexed for MEDLINE]
Free PMC Article

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