-
1
-
-
40849085514
-
FoxA1 translates epigenetic signatures into enhancer driven lineage-specific transcription
-
2323438 18358809 10.1016/j.cell.2008.01.018
-
Lupien M Eeckhoute J Meyer CA Wang Q Zhang Y Li W Carroll JS Liu XS Brown M FoxA1 translates epigenetic signatures into enhancer driven lineage-specific transcription. Cell 2008, 132:958-970. 2323438 18358809 10.1016/j.cell.2008.01.018
-
(2008)
Cell
, vol.132
, pp. 958-970
-
-
Lupien, M.1
Eeckhoute, J.2
Meyer, C.A.3
Wang, Q.4
Zhang, Y.5
Li, W.6
Carroll, J.S.7
Liu, X.S.8
Brown, M.9
-
2
-
-
33646510364
-
Genome-wide analysis of protein-DNA interactions
-
10.1146/annurev.genom.7.080505.115634 16722805
-
Kim TH Ren B Genome-wide analysis of protein-DNA interactions. Annu Rev Genomics Hum Genet 2006, 7:81-102. 10.1146/annurev.genom.7.080505.115634 16722805
-
(2006)
Annu Rev Genomics Hum Genet
, vol.7
, pp. 81-102
-
-
Kim, T.H.1
Ren, B.2
-
3
-
-
0035945567
-
Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF
-
10.1038/35054095 11206552
-
Iyer VR Horak CE Scafe CS Botstein D Snyder M Brown PO Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 2001, 409:533-538. 10.1038/35054095 11206552
-
(2001)
Nature
, vol.409
, pp. 533-538
-
-
Iyer, V.R.1
Horak, C.E.2
Scafe, C.S.3
Botstein, D.4
Snyder, M.5
Brown, P.O.6
-
4
-
-
0034704248
-
Genome-wide location and function of DNA binding proteins
-
10.1126/science.290.5500.2306 11125145
-
Ren B Robert F Wyrick JJ Aparicio O Jennings EG Simon I Zeitlinger J Schreiber J Hannett N Kanin E Volkert TL Wilson CJ Bell SP Young RA Genome-wide location and function of DNA binding proteins. Science 2000, 290:2306-2309. 10.1126/science.290.5500.2306 11125145
-
(2000)
Science
, vol.290
, pp. 2306-2309
-
-
Ren, B.1
Robert, F.2
Wyrick, J.J.3
Aparicio, O.4
Jennings, E.G.5
Simon, I.6
Zeitlinger, J.7
Schreiber, J.8
Hannett, N.9
Kanin, E.10
Volkert, T.L.11
Wilson, C.J.12
Bell, S.P.13
Young, R.A.14
-
5
-
-
34249026300
-
High-resolution profiling of histone methylations in the human genome
-
10.1016/j.cell.2007.05.009 17512414
-
Barski A Cuddapah S Cui K Roh TY Schones DE Wang Z Wei G Chepelev I Zhao K High-resolution profiling of histone methylations in the human genome. Cell 2007, 129:823-837. 10.1016/j.cell.2007.05.009 17512414
-
(2007)
Cell
, vol.129
, pp. 823-837
-
-
Barski, A.1
Cuddapah, S.2
Cui, K.3
Roh, T.Y.4
Schones, D.E.5
Wang, Z.6
Wei, G.7
Chepelev, I.8
Zhao, K.9
-
6
-
-
34547633677
-
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
-
10.1038/nmeth1068 17558387
-
Robertson G Hirst M Bainbridge M Bilenky M Zhao Y Zeng T Euskirchen G Bernier B Varhol R Delaney A Thiessen N Griffith OL He A Marra M Snyder M Jones S Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods 2007, 4:651-657. 10.1038/nmeth1068 17558387
-
(2007)
Nat Methods
, vol.4
, pp. 651-657
-
-
Robertson, G.1
Hirst, M.2
Bainbridge, M.3
Bilenky, M.4
Zhao, Y.5
Zeng, T.6
Euskirchen, G.7
Bernier, B.8
Varhol, R.9
Delaney, A.10
Thiessen, N.11
Griffith, O.L.12
He, A.13
Marra, M.14
Snyder, M.15
Jones, S.16
-
7
-
-
34547624303
-
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
-
10.1038/nature06008 17603471
-
Mikkelsen TS Ku M Jaffe DB Issac B Lieberman E Giannoukos G Alvarez P Brockman W Kim TK Koche RP Lee W Mendenhall E O'Donovan A Presser A Russ C Xie X Meissner A Wernig M Jaenisch R Nusbaum C Lander ES Bernstein BE Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature 2007, 448:553-560. 10.1038/nature06008 17603471
-
(2007)
Nature
, vol.448
, pp. 553-560
-
-
Mikkelsen, T.S.1
Ku, M.2
Jaffe, D.B.3
Issac, B.4
Lieberman, E.5
Giannoukos, G.6
Alvarez, P.7
Brockman, W.8
Kim, T.K.9
Koche, R.P.10
Lee, W.11
Mendenhall, E.12
O'Donovan, A.13
Presser, A.14
Russ, C.15
Xie, X.16
Meissner, A.17
Wernig, M.18
Jaenisch, R.19
Nusbaum, C.20
Lander, E.S.21
Bernstein, B.E.22
more..
-
8
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
10.1126/science.1141319 17540862
-
Johnson DS Mortazavi A Myers RM Wold B Genome-wide mapping of in vivo protein-DNA interactions. Science 2007, 316:1497-1502. 10.1126/ science.1141319 17540862
-
(2007)
Science
, vol.316
, pp. 1497-1502
-
-
Johnson, D.S.1
Mortazavi, A.2
Myers, R.M.3
Wold, B.4
-
9
-
-
30344478870
-
A global map of p53 transcription-factor binding sites in the human genome
-
10.1016/j.cell.2005.10.043 16413492
-
Wei CL Wu Q Vega VB Chiu KP Ng P Zhang T Shahab A Yong HC Fu Y Weng Z Liu J Zhao XD Chew JL Lee YL Kuznetsov VA Sung WK Miller LD Lim B Liu ET Yu Q Ng HH Ruan Y A global map of p53 transcription-factor binding sites in the human genome. Cell 2006, 124:207-219. 10.1016/j.cell.2005.10.043 16413492
-
(2006)
Cell
, vol.124
, pp. 207-219
-
-
Wei, C.L.1
Wu, Q.2
Vega, V.B.3
Chiu, K.P.4
Ng, P.5
Zhang, T.6
Shahab, A.7
Yong, H.C.8
Fu, Y.9
Weng, Z.10
Liu, J.11
Zhao, X.D.12
Chew, J.L.13
Lee, Y.L.14
Kuznetsov, V.A.15
Sung, W.K.16
Miller, L.D.17
Lim, B.18
Liu, E.T.19
Yu, Q.20
Ng, H.H.21
Ruan, Y.22
more..
-
10
-
-
33751329250
-
Global variation in copy number in the human genome
-
10.1038/nature05329 17122850
-
Redon R Ishikawa S Fitch KR Feuk L Perry GH Andrews TD Fiegler H Shapero MH Carson AR Chen W Cho EK Dallaire S Freeman JL Gonzalez JR Gratacos M Huang J Kalaitzopoulos D Komura D MacDonald JR Marshall CR Mei R Montgomery L Nishimura K Okamura K Shen F Somerville MJ Tchinda J Valsesia A Woodwark C Yang F et al.: Global variation in copy number in the human genome. Nature 2006, 444:444-454. 10.1038/nature05329 17122850
-
(2006)
Nature
, vol.444
, pp. 444-454
-
-
Redon, R.1
Ishikawa, S.2
Fitch, K.R.3
Feuk, L.4
Perry, G.H.5
Andrews, T.D.6
Fiegler, H.7
Shapero, M.H.8
Carson, A.R.9
Chen, W.10
Cho, E.K.11
Dallaire, S.12
Freeman, J.L.13
Gonzalez, J.R.14
Gratacos, M.15
Huang, J.16
Kalaitzopoulos, D.17
Komura, D.18
MacDonald, J.R.19
Marshall, C.R.20
Mei, R.21
Montgomery, L.22
Nishimura, K.23
Okamura, K.24
Shen, F.25
Somerville, M.J.26
Tchinda, J.27
Valsesia, A.28
Woodwark, C.29
Yang, F.30
more..
-
11
-
-
53849118265
-
-
FindPeaks http://www.bcgsc.ca/platform/bioinfo/software/findpeaks
-
-
-
-
12
-
-
53849094596
-
-
QuEST http://mendel.stanford.edu/SidowLab/downloads/quest/
-
-
-
-
13
-
-
33747587864
-
Model-based analysis of tiling-arrays for ChIP-chip
-
1567901 16895995 10.1073/pnas.0601180103
-
Johnson WE Li W Meyer CA Gottardo R Carroll JS Brown M Liu XS Model-based analysis of tiling-arrays for ChIP-chip. Proc Natl Acad Sci USA 2006, 103:12457-12462. 1567901 16895995 10.1073/pnas.0601180103
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 12457-12462
-
-
Johnson, W.E.1
Li, W.2
Meyer, C.A.3
Gottardo, R.4
Carroll, J.S.5
Brown, M.6
Liu, X.S.7
-
14
-
-
35748962754
-
Model-based analysis of two-color arrays (MA2C)
-
2375008 17727723 10.1186/gb-2007-8-8-r178
-
Song JS Johnson WE Zhu X Zhang X Li W Manrai AK Liu JS Chen R Liu XS Model-based analysis of two-color arrays (MA2C). Genome Biol 2007, 8:R178. 2375008 17727723 10.1186/gb-2007-8-8-r178
-
(2007)
Genome Biol
, vol.8
-
-
Song, J.S.1
Johnson, W.E.2
Zhu, X.3
Zhang, X.4
Li, W.5
Manrai, A.K.6
Liu, J.S.7
Chen, R.8
Liu, X.S.9
-
15
-
-
33750442923
-
Genome-wide analysis of estrogen receptor binding sites
-
10.1038/ng1901 17013392
-
Carroll JS Meyer CA Song J Li W Geistlinger TR Eeckhoute J Brodsky AS Keeton EK Fertuck KC Hall GF Wang Q Bekiranov S Sementchenko V Fox EA Silver PA Gingeras TR Liu XS Brown M Genome-wide analysis of estrogen receptor binding sites. Nat Genet 2006, 38:1289-1297. 10.1038/ng1901 17013392
-
(2006)
Nat Genet
, vol.38
, pp. 1289-1297
-
-
Carroll, J.S.1
Meyer, C.A.2
Song, J.3
Li, W.4
Geistlinger, T.R.5
Eeckhoute, J.6
Brodsky, A.S.7
Keeton, E.K.8
Fertuck, K.C.9
Hall, G.F.10
Wang, Q.11
Bekiranov, S.12
Sementchenko, V.13
Fox, E.A.14
Silver, P.A.15
Gingeras, T.R.16
Liu, X.S.17
Brown, M.18
-
16
-
-
53849147352
-
-
MACS http://liulab.dfci.harvard.edu/MACS/
-
-
-
|