-
2
-
-
84865708757
-
An expansive human regulatory lexicon encoded in transcription factor footprints
-
Neph S, Vierstra J, Stergachis AB, Reynolds AP, Haugen E, et al. (2012) An expansive human regulatory lexicon encoded in transcription factor footprints. Nature 489: 83-90.
-
(2012)
Nature
, vol.489
, pp. 83-90
-
-
Neph, S.1
Vierstra, J.2
Stergachis, A.B.3
Reynolds, A.P.4
Haugen, E.5
-
3
-
-
0019303186
-
The 5′ ends of Droshophila heat shock genes in chromatin are hypersensitive to DNase I
-
Wu C, (1980) The 5′ ends of Droshophila heat shock genes in chromatin are hypersensitive to DNase I. Nature. 286: 854-860.
-
(1980)
Nature
, vol.286
, pp. 854-860
-
-
Wu, C.1
-
4
-
-
33745409293
-
DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
-
Crawford GE, Davis S, Scacheri PC, Renaud G, Halawi MJ, et al. (2006) DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays. Nature Methods 3: 503-509.
-
(2006)
Nature Methods
, vol.3
, pp. 503-509
-
-
Crawford, G.E.1
Davis, S.2
Scacheri, P.C.3
Renaud, G.4
Halawi, M.J.5
-
5
-
-
33745416080
-
Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays
-
Sabo PJ, Kuehn MS, Thurman R, Johnson BE, Johnson EM, et al. (2006) Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays. Nature Methods 3: 511-518.
-
(2006)
Nature Methods
, vol.3
, pp. 511-518
-
-
Sabo, P.J.1
Kuehn, M.S.2
Thurman, R.3
Johnson, B.E.4
Johnson, E.M.5
-
6
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
Consortium TEP, (2012) An integrated encyclopedia of DNA elements in the human genome. Nature 488: 57-74.
-
(2012)
Nature
, vol.488
, pp. 57-74
-
-
Consortium, T.E.P.1
-
7
-
-
84865840434
-
Predicting cell-type-specific gene expression from regions of open chromatin
-
Natarajan A, Yardimci GG, Shefield NC, Crawford GE, Ohler U, (2012) Predicting cell-type-specific gene expression from regions of open chromatin. Genome research 22: 1711-1722.
-
(2012)
Genome Research
, vol.22
, pp. 1711-1722
-
-
Natarajan, A.1
Yardimci, G.G.2
Shefield, N.C.3
Crawford, G.E.4
Ohler, U.5
-
8
-
-
79952184341
-
Chromatin accessibility pre-determines glucocorticoid receptor binding patterns
-
John S, Sabo PJ, Thurman RE, Sung MH, Biddie SC, et al. (2011) Chromatin accessibility pre-determines glucocorticoid receptor binding patterns. Nature genetics 243: 264-268.
-
(2011)
Nature Genetics
, vol.243
, pp. 264-268
-
-
John, S.1
Sabo, P.J.2
Thurman, R.E.3
Sung, M.H.4
Biddie, S.C.5
-
9
-
-
70349756895
-
CCCTC-Binding factor and the transcription factor T-bet orchestrate T Helper 1 cell-specific structure and function at the interferon-locus
-
Sekimata M, Pérez-Melgosa M, Miller SA, Weinmann AS, Sabo PJ, et al. (2009) CCCTC-Binding factor and the transcription factor T-bet orchestrate T Helper 1 cell-specific structure and function at the interferon-locus. Immunity 31: 551-564.
-
(2009)
Immunity
, vol.31
, pp. 551-564
-
-
Sekimata, M.1
Pérez-Melgosa, M.2
Miller, S.A.3
Weinmann, A.S.4
Sabo, P.J.5
-
10
-
-
38649099445
-
High-resolution mapping and characterization of open chromatin across the genome
-
Boyle AP, Davis S, Shulha HP, Meltzer P, Margulies EH, et al. (2008) High-resolution mapping and characterization of open chromatin across the genome. Cell 132: 311-322.
-
(2008)
Cell
, vol.132
, pp. 311-322
-
-
Boyle, A.P.1
Davis, S.2
Shulha, H.P.3
Meltzer, P.4
Margulies, E.H.5
-
11
-
-
10044264270
-
Discovery of functional noncoding elements by digital analysis of chromatin structure
-
Sabo PJ, Hawrylycz M, Wallace JC, Humbert R, Yu M, et al. (2004) Discovery of functional noncoding elements by digital analysis of chromatin structure. Proceedings of the National Academy of Sciences of the United States of America 101: 16837-16842.
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, pp. 16837-16842
-
-
Sabo, P.J.1
Hawrylycz, M.2
Wallace, J.C.3
Humbert, R.4
Yu, M.5
-
12
-
-
54949147307
-
F-Seq: a feature density estimator for high-throughput sequence tags
-
Boyle AP, Guinney J, Crawford GE, Furey TS, (2008) F-Seq: a feature density estimator for high-throughput sequence tags. Bioinformatics (Oxford, England) 24: 2537-2538.
-
(2008)
Bioinformatics (Oxford, England)
, vol.24
, pp. 2537-2538
-
-
Boyle, A.P.1
Guinney, J.2
Crawford, G.E.3
Furey, T.S.4
-
13
-
-
79551632681
-
Detection and removal of biases in the analysis of next-generation sequencing reads
-
Schwartz S, Oren R, Ast G, (2011) Detection and removal of biases in the analysis of next-generation sequencing reads. PloS One 6: e16685.
-
(2011)
PloS One
, vol.6
-
-
Schwartz, S.1
Oren, R.2
Ast, G.3
-
16
-
-
84865755978
-
The accessible chromatin landscape of the human genome
-
Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, et al. (2012) The accessible chromatin landscape of the human genome. Nature 489: 75-82.
-
(2012)
Nature
, vol.489
, pp. 75-82
-
-
Thurman, R.E.1
Rynes, E.2
Humbert, R.3
Vierstra, J.4
Maurano, M.T.5
-
17
-
-
77956276383
-
DNase-seq: A High-resolution technique for mapping active gene regulatory elements across the genome from mammalian Cells
-
Song L, Crawford GE, (2010) DNase-seq: A High-resolution technique for mapping active gene regulatory elements across the genome from mammalian Cells. Cold Spring Harbor Protocols 2010: 1-11.
-
(2010)
Cold Spring Harbor Protocols
, vol.2010
, pp. 1-11
-
-
Song, L.1
Crawford, G.E.2
-
18
-
-
84861889354
-
Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics
-
He HH, Meyer CA, Chen MW, Jordan VC, Brown M, et al. (2012) Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics. Genome research 22: 1015-1025.
-
(2012)
Genome Research
, vol.22
, pp. 1015-1025
-
-
He, H.H.1
Meyer, C.A.2
Chen, M.W.3
Jordan, V.C.4
Brown, M.5
-
19
-
-
84866848397
-
Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity
-
Tewari AK, Yardimci GG, Shibata Y, Shefield NC, Song L, et al. (2012) Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity. Genome Biology 13: R88.
-
(2012)
Genome Biology
, vol.13
-
-
Tewari, A.K.1
Yardimci, G.G.2
Shibata, Y.3
Shefield, N.C.4
Song, L.5
-
20
-
-
80053539409
-
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, et al. (2011) Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. Genome research 21: 1757-1767.
-
(2011)
Genome Research
, vol.21
, pp. 1757-1767
-
-
Song, L.1
Zhang, Z.2
Grasfeder, L.L.3
Boyle, A.P.4
Giresi, P.G.5
-
21
-
-
70450222293
-
Sequence-dependent DNA exibility mediates dNase I cleavage
-
Heddi B, Abi-Ghanem J, Lavigne M, Hartmann B, (2010) Sequence-dependent DNA exibility mediates dNase I cleavage. Journal of molecular biology 395: 123-133.
-
(2010)
Journal of Molecular Biology
, vol.395
, pp. 123-133
-
-
Heddi, B.1
Abi-Ghanem, J.2
Lavigne, M.3
Hartmann, B.4
-
22
-
-
0025342685
-
Sequence-dependent structural variations of DNA revealed by DNase I
-
Brukner I, Jurukovski V, Savic A, (1990) Sequence-dependent structural variations of DNA revealed by DNase I. Nucleic Acids Research. 18: 891-894.
-
(1990)
Nucleic Acids Research
, vol.18
, pp. 891-894
-
-
Brukner, I.1
Jurukovski, V.2
Savic, A.3
-
23
-
-
0029039118
-
Sequence-dependent bending propensity of DNA as revealed by DNase I: parameters for trinucleotides
-
Brukner I, Sánchez R, Suck D, Pongor S, (1995) Sequence-dependent bending propensity of DNA as revealed by DNase I: parameters for trinucleotides. The EMBO Journal 14: 1812-1818.
-
(1995)
The EMBO Journal
, vol.14
, pp. 1812-1818
-
-
Brukner, I.1
Sánchez, R.2
Suck, D.3
Pongor, S.4
-
24
-
-
0026354983
-
DNase I-induced DNA conformation. 2 A structure of a DNase I-octamer complex
-
Lahm A, Suck D, (1991) DNase I-induced DNA conformation. 2 A structure of a DNase I-octamer complex. Journal of molecular biology 222: 645-667.
-
(1991)
Journal of Molecular Biology
, vol.222
, pp. 645-667
-
-
Lahm, A.1
Suck, D.2
-
25
-
-
0023818825
-
Structure refined to 2A of a nicked DNA octanucleotide complex with DNase I
-
Suck D, Lahm A, Oefner C, (1988) Structure refined to 2A of a nicked DNA octanucleotide complex with DNase I. Nature. 332: 464-468.
-
(1988)
Nature
, vol.332
, pp. 464-468
-
-
Suck, D.1
Lahm, A.2
Oefner, C.3
-
26
-
-
77957940722
-
The NIH roadmap epigenomics mapping consortium
-
Bernstein BE, Stamatoyannopoulos JA, Costello JF, Ren B, Milosavljevic A, et al. (2010) The NIH roadmap epigenomics mapping consortium. Nature biotechnology 28: 1045-1048.
-
(2010)
Nature Biotechnology
, vol.28
, pp. 1045-1048
-
-
Bernstein, B.E.1
Stamatoyannopoulos, J.A.2
Costello, J.F.3
Ren, B.4
Milosavljevic, A.5
-
27
-
-
84862263248
-
The NIH roadmap epigenomics program data resource
-
Chadwick LH, (2012) The NIH roadmap epigenomics program data resource. Epigenomics 4: 317-324.
-
(2012)
Epigenomics
, vol.4
, pp. 317-324
-
-
Chadwick, L.H.1
|