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Items: 22

1.

DNase I hypersensitivity analysis of the mouse brain and retina identifies region-specific regulatory elements.

Wilken MS, Brzezinski JA, La Torre A, Siebenthall K, Thurman R, Sabo P, Sandstrom RS, Vierstra J, Canfield TK, Hansen RS, Bender MA, Stamatoyannopoulos J, Reh TA.

Epigenetics Chromatin. 2015 Feb 28;8:8. doi: 10.1186/1756-8935-8-8. eCollection 2015.

2.

Integrative analysis of 111 reference human epigenomes.

Roadmap Epigenomics Consortium, Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, Sarkar A, Quon G, Sandstrom RS, Eaton ML, Wu YC, Pfenning AR, Wang X, Claussnitzer M, Liu Y, Coarfa C, Harris RA, Shoresh N, Epstein CB, Gjoneska E, Leung D, Xie W, Hawkins RD, Lister R, Hong C, Gascard P, Mungall AJ, Moore R, Chuah E, Tam A, Canfield TK, Hansen RS, Kaul R, Sabo PJ, Bansal MS, Carles A, Dixon JR, Farh KH, Feizi S, Karlic R, Kim AR, Kulkarni A, Li D, Lowdon R, Elliott G, Mercer TR, Neph SJ, Onuchic V, Polak P, Rajagopal N, Ray P, Sallari RC, Siebenthall KT, Sinnott-Armstrong NA, Stevens M, Thurman RE, Wu J, Zhang B, Zhou X, Beaudet AE, Boyer LA, De Jager PL, Farnham PJ, Fisher SJ, Haussler D, Jones SJ, Li W, Marra MA, McManus MT, Sunyaev S, Thomson JA, Tlsty TD, Tsai LH, Wang W, Waterland RA, Zhang MQ, Chadwick LH, Bernstein BE, Costello JF, Ecker JR, Hirst M, Meissner A, Milosavljevic A, Ren B, Stamatoyannopoulos JA, Wang T, Kellis M.

Nature. 2015 Feb 19;518(7539):317-30. doi: 10.1038/nature14248.

3.

Topologically associating domains are stable units of replication-timing regulation.

Pope BD, Ryba T, Dileep V, Yue F, Wu W, Denas O, Vera DL, Wang Y, Hansen RS, Canfield TK, Thurman RE, Cheng Y, Gülsoy G, Dennis JH, Snyder MP, Stamatoyannopoulos JA, Taylor J, Hardison RC, Kahveci T, Ren B, Gilbert DM.

Nature. 2014 Nov 20;515(7527):402-5. doi: 10.1038/nature13986.

4.

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.

5.

Systematic localization of common disease-associated variation in regulatory DNA.

Maurano MT, Humbert R, Rynes E, Thurman RE, Haugen E, Wang H, Reynolds AP, Sandstrom R, Qu H, Brody J, Shafer A, Neri F, Lee K, Kutyavin T, Stehling-Sun S, Johnson AK, Canfield TK, Giste E, Diegel M, Bates D, Hansen RS, Neph S, Sabo PJ, Heimfeld S, Raubitschek A, Ziegler S, Cotsapas C, Sotoodehnia N, Glass I, Sunyaev SR, Kaul R, Stamatoyannopoulos JA.

Science. 2012 Sep 7;337(6099):1190-5. doi: 10.1126/science.1222794. Epub 2012 Sep 5.

6.

The accessible chromatin landscape of the human genome.

Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, Haugen E, Sheffield NC, Stergachis AB, Wang H, Vernot B, Garg K, John S, Sandstrom R, Bates D, Boatman L, Canfield TK, Diegel M, Dunn D, Ebersol AK, Frum T, Giste E, Johnson AK, Johnson EM, Kutyavin T, Lajoie B, Lee BK, Lee K, London D, Lotakis D, Neph S, Neri F, Nguyen ED, Qu H, Reynolds AP, Roach V, Safi A, Sanchez ME, Sanyal A, Shafer A, Simon JM, Song L, Vong S, Weaver M, Yan Y, Zhang Z, Zhang Z, Lenhard B, Tewari M, Dorschner MO, Hansen RS, Navas PA, Stamatoyannopoulos G, Iyer VR, Lieb JD, Sunyaev SR, Akey JM, Sabo PJ, Kaul R, Furey TS, Dekker J, Crawford GE, Stamatoyannopoulos JA.

Nature. 2012 Sep 6;489(7414):75-82. doi: 10.1038/nature11232.

7.

Dynamic reprogramming of chromatin accessibility during Drosophila embryo development.

Thomas S, Li XY, Sabo PJ, Sandstrom R, Thurman RE, Canfield TK, Giste E, Fisher W, Hammonds A, Celniker SE, Biggin MD, Stamatoyannopoulos JA.

Genome Biol. 2011;12(5):R43. doi: 10.1186/gb-2011-12-5-r43. Epub 2011 May 11.

8.

Comprehensive analysis of the chromatin landscape in Drosophila melanogaster.

Kharchenko PV, Alekseyenko AA, Schwartz YB, Minoda A, Riddle NC, Ernst J, Sabo PJ, Larschan E, Gorchakov AA, Gu T, Linder-Basso D, Plachetka A, Shanower G, Tolstorukov MY, Luquette LJ, Xi R, Jung YL, Park RW, Bishop EP, Canfield TK, Sandstrom R, Thurman RE, MacAlpine DM, Stamatoyannopoulos JA, Kellis M, Elgin SC, Kuroda MI, Pirrotta V, Karpen GH, Park PJ.

Nature. 2011 Mar 24;471(7339):480-5. doi: 10.1038/nature09725. Epub 2010 Dec 22.

9.

Sequencing newly replicated DNA reveals widespread plasticity in human replication timing.

Hansen RS, Thomas S, Sandstrom R, Canfield TK, Thurman RE, Weaver M, Dorschner MO, Gartler SM, Stamatoyannopoulos JA.

Proc Natl Acad Sci U S A. 2010 Jan 5;107(1):139-44. doi: 10.1073/pnas.0912402107. Epub 2009 Dec 4.

10.

Abnormal X: autosome ratio, but normal X chromosome inactivation in human triploid cultures.

Gartler SM, Varadarajan KR, Luo P, Norwood TH, Canfield TK, Hansen RS.

BMC Genet. 2006 Jul 3;7:41.

11.

Normal histone modifications on the inactive X chromosome in ICF and Rett syndrome cells: implications for methyl-CpG binding proteins.

Gartler SM, Varadarajan KR, Luo P, Canfield TK, Traynor J, Francke U, Hansen RS.

BMC Biol. 2004 Sep 20;2:21.

12.

Escape from gene silencing in ICF syndrome: evidence for advanced replication time as a major determinant.

Hansen RS, Stöger R, Wijmenga C, Stanek AM, Canfield TK, Luo P, Matarazzo MR, D'Esposito M, Feil R, Gimelli G, Weemaes CM, Laird CD, Gartler SM.

Hum Mol Genet. 2000 Nov 1;9(18):2575-87.

PMID:
11063717
13.

The DNMT3B DNA methyltransferase gene is mutated in the ICF immunodeficiency syndrome.

Hansen RS, Wijmenga C, Luo P, Stanek AM, Canfield TK, Weemaes CM, Gartler SM.

Proc Natl Acad Sci U S A. 1999 Dec 7;96(25):14412-7.

14.

Reactivation of XIST in normal fibroblasts and a somatic cell hybrid: abnormal localization of XIST RNA in hybrid cells.

Hansen RS, Canfield TK, Stanek AM, Keitges EA, Gartler SM.

Proc Natl Acad Sci U S A. 1998 Apr 28;95(9):5133-8.

15.

A variable domain of delayed replication in FRAXA fragile X chromosomes: X inactivation-like spread of late replication.

Hansen RS, Canfield TK, Fjeld AD, Mumm S, Laird CD, Gartler SM.

Proc Natl Acad Sci U S A. 1997 Apr 29;94(9):4587-92.

16.

Role of late replication timing in the silencing of X-linked genes.

Hansen RS, Canfield TK, Fjeld AD, Gartler SM.

Hum Mol Genet. 1996 Sep;5(9):1345-53.

PMID:
8872476
17.

Reverse replication timing for the XIST gene in human fibroblasts.

Hansen RS, Canfield TK, Gartler SM.

Hum Mol Genet. 1995 May;4(5):813-20.

PMID:
7633440
18.

Association of fragile X syndrome with delayed replication of the FMR1 gene.

Hansen RS, Canfield TK, Lamb MM, Gartler SM, Laird CD.

Cell. 1993 Jul 2;73(7):1403-9.

PMID:
8324827
19.

Chromosomal fragile sites: molecular test of the delayed-replication model.

Laird CD, Hansen RS, Canfield TK, Lamb MM, Gartler SM.

Cold Spring Harb Symp Quant Biol. 1993;58:633-5. No abstract available.

PMID:
7956079
20.
21.

Chromatin structure of active and inactive human X chromosomes.

Riley DE, Canfield TK, Gartler SM.

Nucleic Acids Res. 1984 Feb 24;12(4):1829-45.

22.

Patterns of protein synthesis at the onset of oogenesis in the mouse.

Cole RE, Canfield TK, Gartler SM.

Differentiation. 1982;22(2):85-9.

PMID:
6897050

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