-
1
-
-
34250159524
-
Genome-wide mapping of in vivo protein-DNA interactions
-
Johnson DS, Mortazavi A, Myers RM, Wold B (2007) Genome-wide mapping of in vivo protein-DNA interactions. Science 316: 1497-1502.
-
(2007)
Science
, vol.316
, pp. 1497-1502
-
-
Johnson, D.S.1
Mortazavi, A.2
Myers, R.M.3
Wold, B.4
-
2
-
-
34547633677
-
Genomewide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
-
Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, et al. (2007) Genomewide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods 4: 651-657.
-
(2007)
Nat Methods
, vol.4
, pp. 651-657
-
-
Robertson, G.1
Hirst, M.2
Bainbridge, M.3
Bilenky, M.4
Zhao, Y.5
-
3
-
-
49249110970
-
Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing
-
Wederell ED, Bilenky M, Cullum R, Thiessen N, Dagpinar M, et al. (2008) Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing. Nucleic Acids Res 36: 4549-4564.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 4549-4564
-
-
Wederell, E.D.1
Bilenky, M.2
Cullum, R.3
Thiessen, N.4
Dagpinar, M.5
-
4
-
-
50849090969
-
Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data
-
Valouev A, Johnson DS, Sundquist A, Medina C, Anton E, et al. (2008) Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data. Nat Methods 5: 829-834.
-
(2008)
Nat Methods
, vol.5
, pp. 829-834
-
-
Valouev, A.1
Johnson, D.S.2
Sundquist, A.3
Medina, C.4
Anton, E.5
-
5
-
-
52649132425
-
Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data
-
Jothi R, Cuddapah S, Barski A, Cui K, Zhao K (2008) Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data. Nucleic Acids Res 36: 5221-5231.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 5221-5231
-
-
Jothi, R.1
Cuddapah, S.2
Barski, A.3
Cui, K.4
Zhao, K.5
-
6
-
-
69249087790
-
Impact of chromatin structures on DNA processing for genomic analyses
-
Teytelman L, Ozaydin B, Zill O, Lefrancois P, Snyder M, et al. (2009) Impact of chromatin structures on DNA processing for genomic analyses. PLoS ONE 4: e6700.
-
(2009)
PLoS ONE
, vol.4
-
-
Teytelman, L.1
Ozaydin, B.2
Zill, O.3
Lefrancois, P.4
Snyder, M.5
-
7
-
-
0001003110
-
XTcf-3 transcription factor mediates beta-catenininduced axis formation in Xenopus embryos
-
Molenaar M, van de Wetering M, Oosterwegel M, Peterson-Maduro J, Godsave S, et al. (1996) XTcf-3 transcription factor mediates beta-catenininduced axis formation in Xenopus embryos. Cell 86: 391-399.
-
(1996)
Cell
, vol.86
, pp. 391-399
-
-
Molenaar, M.1
van de Wetering, M.2
Oosterwegel, M.3
Peterson-Maduro, J.4
Godsave, S.5
-
8
-
-
0029781509
-
Functional interaction of beta-catenin with the transcription factor LEF-1
-
Behrens J, von Kries JP, Kuhl M, Bruhn L, Wedlich D, et al. (1996) Functional interaction of beta-catenin with the transcription factor LEF-1. Nature 382: 638-642.
-
(1996)
Nature
, vol.382
, pp. 638-642
-
-
Behrens, J.1
von Kries, J.P.2
Kuhl, M.3
Bruhn, L.4
Wedlich, D.5
-
9
-
-
0030999806
-
Armadillo coactivates transcription driven by the product of the Drosophila segment polarity gene dTCF
-
van de Wetering M, Cavallo R, Dooijes D, van Beest M, van Es J, et al. (1997) Armadillo coactivates transcription driven by the product of the Drosophila segment polarity gene dTCF. Cell 88: 789-799.
-
(1997)
Cell
, vol.88
, pp. 789-799
-
-
van de Wetering, M.1
Cavallo, R.2
Dooijes, D.3
van Beest, M.4
van Es, J.5
-
10
-
-
42149183576
-
Genome-wide pattern of TCF7L2/TCF4 chromatin occupancy in colorectal cancer cells
-
Hatzis P, van der Flier LG, van Driel MA, Guryev V, Nielsen F, et al. (2008) Genome-wide pattern of TCF7L2/TCF4 chromatin occupancy in colorectal cancer cells. Mol Cell Biol 28: 2732-2744.
-
(2008)
Mol Cell Biol
, vol.28
, pp. 2732-2744
-
-
Hatzis, P.1
van der Flier, L.G.2
van Driel, M.A.3
Guryev, V.4
Nielsen, F.5
-
11
-
-
70349312354
-
ChIP-seq: Advantages and challenges of a maturing technology
-
Park PJ (2009) ChIP-seq: advantages and challenges of a maturing technology. Nat Rev Genet 10: 669-680.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 669-680
-
-
Park, P.J.1
-
12
-
-
57449100870
-
Design and analysis of ChIPseq experiments for DNA-binding proteins
-
Kharchenko PV, Tolstorukov MY, Park PJ (2008) Design and analysis of ChIPseq experiments for DNA-binding proteins. Nat Biotechnol 26: 1351-1359.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1351-1359
-
-
Kharchenko, P.V.1
Tolstorukov, M.Y.2
Park, P.J.3
-
13
-
-
0037179716
-
Active genes are tri-methylated at K4 of histone H3
-
Santos-Rosa H, Schneider R, Bannister AJ, Sherriff J, Bernstein BE, et al. (2002) Active genes are tri-methylated at K4 of histone H3. Nature 419: 407-411.
-
(2002)
Nature
, vol.419
, pp. 407-411
-
-
Santos-Rosa, H.1
Schneider, R.2
Bannister, A.J.3
Sherriff, J.4
Bernstein, B.E.5
-
14
-
-
51149098797
-
Cooperative action of NC2 and Mot1p to regulate TATA-binding protein function across the genome
-
van Werven FJ, van Bakel H, van Teeffelen HA, Altelaar AF, Koerkamp MG, et al. (2008) Cooperative action of NC2 and Mot1p to regulate TATA-binding protein function across the genome. Genes Dev 22: 2359-2369.
-
(2008)
Genes Dev
, vol.22
, pp. 2359-2369
-
-
van Werven, F.J.1
van Bakel, H.2
van Teeffelen, H.A.3
Altelaar, A.F.4
Koerkamp, M.G.5
-
15
-
-
55749094855
-
An integrated software system for analyzing ChIP-chip and ChIP-seq data
-
Ji H, Jiang H, Ma W, Johnson DS, Myers RM, et al. (2008) An integrated software system for analyzing ChIP-chip and ChIP-seq data. Nat Biotechnol 26: 1293-1300.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1293-1300
-
-
Ji, H.1
Jiang, H.2
Ma, W.3
Johnson, D.S.4
Myers, R.M.5
-
16
-
-
3042579602
-
How do site-specific DNA-binding proteins find their targets?
-
Halford SE, Marko JF (2004) How do site-specific DNA-binding proteins find their targets? Nucleic Acids Res 32: 3040-3052.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 3040-3052
-
-
Halford, S.E.1
Marko, J.F.2
-
17
-
-
23744458086
-
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
-
Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, et al. (2005) Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res 15: 1034-1050.
-
(2005)
Genome Res
, vol.15
, pp. 1034-1050
-
-
Siepel, A.1
Bejerano, G.2
Pedersen, J.S.3
Hinrichs, A.S.4
Hou, M.5
-
18
-
-
70449103609
-
An oestrogenreceptor-alpha-bound human chromatin interactome
-
Fullwood MJ, Liu MH, Pan YF, Liu J, Xu H, et al. (2009) An oestrogenreceptor-alpha-bound human chromatin interactome. Nature 462: 58-64.
-
(2009)
Nature
, vol.462
, pp. 58-64
-
-
Fullwood, M.J.1
Liu, M.H.2
Pan, Y.F.3
Liu, J.4
Xu, H.5
-
19
-
-
33750442923
-
Genome-wide analysis of estrogen receptor binding sites
-
Carroll JS, Meyer CA, Song J, Li W, Geistlinger TR, et al. (2006) Genome-wide analysis of estrogen receptor binding sites. Nat Genet 38: 1289-1297.
-
(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
-
20
-
-
30344478870
-
A global map of p53 transcription-factor binding sites in the human genome
-
Wei CL, Wu Q, Vega VB, Chiu KP, Ng P, et al. (2006) A global map of p53 transcription-factor binding sites in the human genome. Cell 124: 207-219.
-
(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
-
21
-
-
10744219596
-
Specific inhibition of gene expression using a stably integrated, inducible small-interfering-RNA vector
-
van de Wetering M, Oving I, Muncan V, Pon Fong MT, Brantjes H, et al. (2003) Specific inhibition of gene expression using a stably integrated, inducible small-interfering-RNA vector. EMBO Rep 4: 609-615.
-
(2003)
EMBO Rep
, vol.4
, pp. 609-615
-
-
van de Wetering, M.1
Oving, I.2
Muncan, V.3
Pon Fong, M.T.4
Brantjes, H.5
-
22
-
-
18644373146
-
The beta-catenin/TCF-4 complex imposes a crypt progenitor phenotype on colorectal cancer cells
-
van de Wetering M, Sancho E, Verweij C, de Lau W, Oving I, et al. (2002) The beta-catenin/TCF-4 complex imposes a crypt progenitor phenotype on colorectal cancer cells. Cell 111: 241-250.
-
(2002)
Cell
, vol.111
, pp. 241-250
-
-
van de Wetering, M.1
Sancho, E.2
Verweij, C.3
de Lau, W.4
Oving, I.5
-
23
-
-
67049159825
-
SHRiMP: Accurate mapping of short color-space reads
-
Rumble SM, Lacroute P, Dalca AV, Fiume M, Sidow A, et al. (2009) SHRiMP: accurate mapping of short color-space reads. PLoS Comput Biol 5: e1000386.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Rumble, S.M.1
Lacroute, P.2
Dalca, A.V.3
Fiume, M.4
Sidow, A.5
-
24
-
-
55549097836
-
Mapping short DNA sequencing reads and calling variants using mapping quality scores
-
Li H, Ruan J, Durbin R (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res 18: 1851-1858.
-
(2008)
Genome Res
, vol.18
, pp. 1851-1858
-
-
Li, H.1
Ruan, J.2
Durbin, R.3
|