-
1
-
-
70349312354
-
ChIP-seq: advantages and challenges of a maturing technology.
-
3191340, 19736561
-
Park PJ. ChIP-seq: advantages and challenges of a maturing technology. Nat Rev Genet 2009, 10:669-680. 3191340, 19736561.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 669-680
-
-
Park, P.J.1
-
2
-
-
55749094855
-
An integrated software system for analyzing ChIP-chip and ChIP-seq data.
-
10.1038/nbt.1505, 2596672, 18978777
-
Ji H, Jiang H, Ma W, Johnson DS, Myers RM, Wong WH. An integrated software system for analyzing ChIP-chip and ChIP-seq data. Nat Biotechnol 2008, 26:1293-1300. 10.1038/nbt.1505, 2596672, 18978777.
-
(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
Wong, W.H.6
-
3
-
-
60149112271
-
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls.
-
10.1038/nbt.1518, 2924752, 19122651
-
Rozowsky J, Euskirchen G, Auerbach RK, Zhang ZD, Gibson T, Bjornson R, Carriero N, Snyder M, Gerstein MB. PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. Nat Biotechnol 2009, 27:66-75. 10.1038/nbt.1518, 2924752, 19122651.
-
(2009)
Nat Biotechnol
, vol.27
, pp. 66-75
-
-
Rozowsky, J.1
Euskirchen, G.2
Auerbach, R.K.3
Zhang, Z.D.4
Gibson, T.5
Bjornson, R.6
Carriero, N.7
Snyder, M.8
Gerstein, M.B.9
-
4
-
-
53849146020
-
Model-based analysis of ChIP-Seq (MACS).
-
10.1186/gb-2008-9-9-r137, 2592715, 18798982
-
Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based analysis of ChIP-Seq (MACS). Genome Biol 2008, 9:R137. 10.1186/gb-2008-9-9-r137, 2592715, 18798982.
-
(2008)
Genome Biol
, vol.9
-
-
Zhang, Y.1
Liu, T.2
Meyer, C.A.3
Eeckhoute, J.4
Johnson, D.S.5
Bernstein, B.E.6
Nusbaum, C.7
Myers, R.M.8
Brown, M.9
Li, W.10
Liu, X.S.11
-
5
-
-
70449675049
-
Discovering hematopoietic mechanisms through genome-wide analysis of GATA factor chromatin occupancy.
-
10.1016/j.molcel.2009.11.001, 2784893, 19941826
-
Fujiwara T, O'Geen H, Keles S, Blahnik K, Linnemann AK, Kang YA, Choi K, Farnham PJ, Bresnick EH. Discovering hematopoietic mechanisms through genome-wide analysis of GATA factor chromatin occupancy. Mol Cell 2009, 36:667-681. 10.1016/j.molcel.2009.11.001, 2784893, 19941826.
-
(2009)
Mol Cell
, vol.36
, pp. 667-681
-
-
Fujiwara, T.1
O'Geen, H.2
Keles, S.3
Blahnik, K.4
Linnemann, A.K.5
Kang, Y.A.6
Choi, K.7
Farnham, P.J.8
Bresnick, E.H.9
-
6
-
-
77954954200
-
PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression.
-
10.1038/nature09272, 3059551, 20622854
-
Liu W, Tanasa B, Tyurina OV, Zhou TY, Gassmann R, Liu WT, Ohgi KA, Benner C, Garcia-Bassets I, Aggarwal AK, Desai A, Dorrestein PC, Glass CK, Rosenfeld MG. PHF8 mediates histone H4 lysine 20 demethylation events involved in cell cycle progression. Nature 2010, 466:508-512. 10.1038/nature09272, 3059551, 20622854.
-
(2010)
Nature
, vol.466
, pp. 508-512
-
-
Liu, W.1
Tanasa, B.2
Tyurina, O.V.3
Zhou, T.Y.4
Gassmann, R.5
Liu, W.T.6
Ohgi, K.A.7
Benner, C.8
Garcia-Bassets, I.9
Aggarwal, A.K.10
Desai, A.11
Dorrestein, P.C.12
Glass, C.K.13
Rosenfeld, M.G.14
-
7
-
-
70449638281
-
Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis.
-
10.1016/j.molcel.2009.11.002, 2800995, 19941827
-
Yu M, Riva L, Xie H, Schindler Y, Moran TB, Cheng Y, Yu D, Hardison R, Weiss MJ, Orkin SH, Bernstein BE, Fraenkel E, Cantor AB. Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis. Mol Cell 2009, 36:682-695. 10.1016/j.molcel.2009.11.002, 2800995, 19941827.
-
(2009)
Mol Cell
, vol.36
, pp. 682-695
-
-
Yu, M.1
Riva, L.2
Xie, H.3
Schindler, Y.4
Moran, T.B.5
Cheng, Y.6
Yu, D.7
Hardison, R.8
Weiss, M.J.9
Orkin, S.H.10
Bernstein, B.E.11
Fraenkel, E.12
Cantor, A.B.13
-
8
-
-
77953062527
-
Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding.
-
10.1126/science.1186176, 3008766, 20378774
-
Schmidt D, Wilson MD, Ballester B, Schwalie PC, Brown GD, Marshall A, Kutter C, Watt S, Martinez-Jimenez CP, Mackay S, Talianidis I, Flicek P, Odom DT. Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding. Science 2010, 328:1036-1040. 10.1126/science.1186176, 3008766, 20378774.
-
(2010)
Science
, vol.328
, pp. 1036-1040
-
-
Schmidt, D.1
Wilson, M.D.2
Ballester, B.3
Schwalie, P.C.4
Brown, G.D.5
Marshall, A.6
Kutter, C.7
Watt, S.8
Martinez-Jimenez, C.P.9
Mackay, S.10
Talianidis, I.11
Flicek, P.12
Odom, D.T.13
-
9
-
-
79955480674
-
Genome-wide analysis reveals novel molecular features of mouse recombination hotspots.
-
10.1038/nature09869, 3117304, 21460839
-
Smagulova F, Gregoretti IV, Brick K, Khil P, Camerini-Otero RD, Petukhova GV. Genome-wide analysis reveals novel molecular features of mouse recombination hotspots. Nature 2011, 472:375-378. 10.1038/nature09869, 3117304, 21460839.
-
(2011)
Nature
, vol.472
, pp. 375-378
-
-
Smagulova, F.1
Gregoretti, I.V.2
Brick, K.3
Khil, P.4
Camerini-Otero, R.D.5
Petukhova, G.V.6
-
10
-
-
79956302047
-
TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity.
-
10.1038/nature10066, 21490601
-
Williams K, Christensen J, Pedersen MT, Johansen JV, Cloos PA, Rappsilber J, Helin K. TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity. Nature 2011, 473:343-348. 10.1038/nature10066, 21490601.
-
(2011)
Nature
, vol.473
, pp. 343-348
-
-
Williams, K.1
Christensen, J.2
Pedersen, M.T.3
Johansen, J.V.4
Cloos, P.A.5
Rappsilber, J.6
Helin, K.7
-
11
-
-
53749092745
-
An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data.
-
10.1093/bioinformatics/btn402, 18667444
-
Xu H, Wei CL, Lin F, Sung WK. An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data. Bioinformatics 2008, 24:2344-2349. 10.1093/bioinformatics/btn402, 18667444.
-
(2008)
Bioinformatics
, vol.24
, pp. 2344-2349
-
-
Xu, H.1
Wei, C.L.2
Lin, F.3
Sung, W.K.4
-
12
-
-
69849103628
-
Comparative study on ChIP-seq data: normalization and binding pattern characterization.
-
10.1093/bioinformatics/btp384, 2800347, 19561022
-
Taslim C, Wu J, Yan P, Singer G, Parvin J, Huang T, Lin S, Huang K. Comparative study on ChIP-seq data: normalization and binding pattern characterization. Bioinformatics 2009, 25:2334-2340. 10.1093/bioinformatics/btp384, 2800347, 19561022.
-
(2009)
Bioinformatics
, vol.25
, pp. 2334-2340
-
-
Taslim, C.1
Wu, J.2
Yan, P.3
Singer, G.4
Parvin, J.5
Huang, T.6
Lin, S.7
Huang, K.8
-
13
-
-
33644872577
-
Limma: linear models for microarray data.
-
New York: Springer, Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S
-
Smyth GK. Limma: linear models for microarray data. Bioinformatics and Computational Biology Solutions Using R and Bioconductor 2005, 397-420. New York: Springer, Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S.
-
(2005)
Bioinformatics and Computational Biology Solutions Using R and Bioconductor
, pp. 397-420
-
-
Smyth, G.K.1
-
14
-
-
0037316303
-
A comparison of normalization methods for high density oligonucleotide array data based on variance and bias.
-
10.1093/bioinformatics/19.2.185, 12538238
-
Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19:185-193. 10.1093/bioinformatics/19.2.185, 12538238.
-
(2003)
Bioinformatics
, vol.19
, pp. 185-193
-
-
Bolstad, B.M.1
Irizarry, R.A.2
Astrand, M.3
Speed, T.P.4
-
15
-
-
77955627637
-
Nutrition, epigenetics, and developmental plasticity: implications for understanding human disease.
-
10.1146/annurev.nutr.012809.104751, 20415585
-
Burdge GC, Lillycrop KA. Nutrition, epigenetics, and developmental plasticity: implications for understanding human disease. Annu Rev Nutr 2010, 30:315-339. 10.1146/annurev.nutr.012809.104751, 20415585.
-
(2010)
Annu Rev Nutr
, vol.30
, pp. 315-339
-
-
Burdge, G.C.1
Lillycrop, K.A.2
-
16
-
-
0030681260
-
The significance of digital gene expression profiles.
-
Audic S, Claverie JM. The significance of digital gene expression profiles. Genome Res 1997, 7:986-995.
-
(1997)
Genome Res
, vol.7
, pp. 986-995
-
-
Audic, S.1
Claverie, J.M.2
-
17
-
-
68349135058
-
Histone modification patterns and epigenetic codes.
-
10.1016/j.bbagen.2008.12.006, 19168116
-
Lennartsson A, Ekwall K. Histone modification patterns and epigenetic codes. Biochim Biophys Acta 2009, 1790:863-868. 10.1016/j.bbagen.2008.12.006, 19168116.
-
(2009)
Biochim Biophys Acta
, vol.1790
, pp. 863-868
-
-
Lennartsson, A.1
Ekwall, K.2
-
18
-
-
78650758676
-
Histone H3K27ac separates active from poised enhancers and predicts developmental state.
-
10.1073/pnas.1016071107, 3003124, 21106759
-
Creyghton MP, Cheng AW, Welstead GG, Kooistra T, Carey BW, Steine EJ, Hanna J, Lodato MA, Frampton GM, Sharp PA, Boyer LA, Young RA, Jaenisch R. Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc Natl Acad Sci USA 2010, 107:21931-21936. 10.1073/pnas.1016071107, 3003124, 21106759.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 21931-21936
-
-
Creyghton, M.P.1
Cheng, A.W.2
Welstead, G.G.3
Kooistra, T.4
Carey, B.W.5
Steine, E.J.6
Hanna, J.7
Lodato, M.A.8
Frampton, G.M.9
Sharp, P.A.10
Boyer, L.A.11
Young, R.A.12
Jaenisch, R.13
-
19
-
-
79951516056
-
A unique chromatin signature uncovers early developmental enhancers in humans.
-
10.1038/nature09692, 21160473
-
Rada-Iglesias A, Bajpai R, Swigut T, Brugmann SA, Flynn RA, Wysocka J. A unique chromatin signature uncovers early developmental enhancers in humans. Nature 2011, 470:279-283. 10.1038/nature09692, 21160473.
-
(2011)
Nature
, vol.470
, pp. 279-283
-
-
Rada-Iglesias, A.1
Bajpai, R.2
Swigut, T.3
Brugmann, S.A.4
Flynn, R.A.5
Wysocka, J.6
-
20
-
-
25144525014
-
Core transcriptional regulatory circuitry in human embryonic stem cells.
-
10.1016/j.cell.2005.08.020, 3006442, 16153702
-
Boyer LA, Lee TI, Cole MF, Johnstone SE, Levine SS, Zucker JP, Guenther MG, Kumar RM, Murray HL, Jenner RG, Gifford DK, Melton DA, Jaenisch R, Young RA. Core transcriptional regulatory circuitry in human embryonic stem cells. Cell 2005, 122:947-956. 10.1016/j.cell.2005.08.020, 3006442, 16153702.
-
(2005)
Cell
, vol.122
, pp. 947-956
-
-
Boyer, L.A.1
Lee, T.I.2
Cole, M.F.3
Johnstone, S.E.4
Levine, S.S.5
Zucker, J.P.6
Guenther, M.G.7
Kumar, R.M.8
Murray, H.L.9
Jenner, R.G.10
Gifford, D.K.11
Melton, D.A.12
Jaenisch, R.13
Young, R.A.14
-
21
-
-
6044269157
-
Self-renewal of teratocarcinoma and embryonic stem cells.
-
10.1038/sj.onc.1207930, 15378075
-
Chambers I, Smith A. Self-renewal of teratocarcinoma and embryonic stem cells. Oncogene 2004, 23:7150-7160. 10.1038/sj.onc.1207930, 15378075.
-
(2004)
Oncogene
, vol.23
, pp. 7150-7160
-
-
Chambers, I.1
Smith, A.2
-
22
-
-
77957757417
-
A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs.
-
10.1016/j.cell.2010.09.010, 3018841, 20946988
-
Kim J, Woo AJ, Chu J, Snow JW, Fujiwara Y, Kim CG, Cantor AB, Orkin SH. A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs. Cell 2010, 143:313-324. 10.1016/j.cell.2010.09.010, 3018841, 20946988.
-
(2010)
Cell
, vol.143
, pp. 313-324
-
-
Kim, J.1
Woo, A.J.2
Chu, J.3
Snow, J.W.4
Fujiwara, Y.5
Kim, C.G.6
Cantor, A.B.7
Orkin, S.H.8
-
23
-
-
77951920690
-
C-Myc regulates transcriptional pause release.
-
10.1016/j.cell.2010.03.030, 2864022, 20434984
-
Rahl PB, Lin CY, Seila AC, Flynn RA, McCuine S, Burge CB, Sharp PA, Young RA. c-Myc regulates transcriptional pause release. Cell 2010, 141:432-445. 10.1016/j.cell.2010.03.030, 2864022, 20434984.
-
(2010)
Cell
, vol.141
, pp. 432-445
-
-
Rahl, P.B.1
Lin, C.Y.2
Seila, A.C.3
Flynn, R.A.4
McCuine, S.5
Burge, C.B.6
Sharp, P.A.7
Young, R.A.8
-
24
-
-
78649723495
-
Unbiased, genome-wide in vivo mapping of transcriptional regulatory elements reveals sex differences in chromatin structure associated with sex-specific liver gene expression.
-
10.1128/MCB.00601-10, 2976433, 20876297
-
Ling G, Sugathan A, Mazor T, Fraenkel E, Waxman DJ. Unbiased, genome-wide in vivo mapping of transcriptional regulatory elements reveals sex differences in chromatin structure associated with sex-specific liver gene expression. Mol Cell Biol 2010, 30:5531-5544. 10.1128/MCB.00601-10, 2976433, 20876297.
-
(2010)
Mol Cell Biol
, vol.30
, pp. 5531-5544
-
-
Ling, G.1
Sugathan, A.2
Mazor, T.3
Fraenkel, E.4
Waxman, D.J.5
-
25
-
-
84863011066
-
Dynamic, sex-differential STAT5 and BCL6 binding to sex-biased, growth hormone-regulated genes in adult mouse liver.
-
10.1128/MCB.06312-11, 22158971
-
Zhang Y, Laz EV, Waxman DJ. Dynamic, sex-differential STAT5 and BCL6 binding to sex-biased, growth hormone-regulated genes in adult mouse liver. Mol Cell Biol 2012, 32:880-896. 10.1128/MCB.06312-11, 22158971.
-
(2012)
Mol Cell Biol
, vol.32
, pp. 880-896
-
-
Zhang, Y.1
Laz, E.V.2
Waxman, D.J.3
-
26
-
-
79951711112
-
Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains.
-
10.1016/j.cell.2011.01.020, 21335234
-
Jiang H, Shukla A, Wang X, Chen WY, Bernstein BE, Roeder RG. Role for Dpy-30 in ES cell-fate specification by regulation of H3K4 methylation within bivalent domains. Cell 2011, 144:513-525. 10.1016/j.cell.2011.01.020, 21335234.
-
(2011)
Cell
, vol.144
, pp. 513-525
-
-
Jiang, H.1
Shukla, A.2
Wang, X.3
Chen, W.Y.4
Bernstein, B.E.5
Roeder, R.G.6
-
27
-
-
33847032960
-
The mammalian epigenome.
-
10.1016/j.cell.2007.01.033, 17320505
-
Bernstein BE, Meissner A, Lander ES. The mammalian epigenome. Cell 2007, 128:669-681. 10.1016/j.cell.2007.01.033, 17320505.
-
(2007)
Cell
, vol.128
, pp. 669-681
-
-
Bernstein, B.E.1
Meissner, A.2
Lander, E.S.3
-
28
-
-
78650747491
-
Discovery and characterization of chromatin states for systematic annotation of the human genome.
-
10.1038/nbt.1662, 2919626, 20657582
-
Ernst J, Kellis M. Discovery and characterization of chromatin states for systematic annotation of the human genome. Nat Biotechnol 2010, 28:817-825. 10.1038/nbt.1662, 2919626, 20657582.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 817-825
-
-
Ernst, J.1
Kellis, M.2
-
29
-
-
79955583542
-
Mapping and analysis of chromatin state dynamics in nine human cell types.
-
10.1038/nature09906, 3088773, 21441907
-
Ernst J, Kheradpour P, Mikkelsen TS, Shoresh N, Ward LD, Epstein CB, Zhang X, Wang L, Issner R, Coyne M, Ku M, Durham T, Kellis M, Bernstein BE. Mapping and analysis of chromatin state dynamics in nine human cell types. Nature 2011, 473:43-49. 10.1038/nature09906, 3088773, 21441907.
-
(2011)
Nature
, vol.473
, pp. 43-49
-
-
Ernst, J.1
Kheradpour, P.2
Mikkelsen, T.S.3
Shoresh, N.4
Ward, L.D.5
Epstein, C.B.6
Zhang, X.7
Wang, L.8
Issner, R.9
Coyne, M.10
Ku, M.11
Durham, T.12
Kellis, M.13
Bernstein, B.E.14
-
30
-
-
78149330997
-
Epigenetic domains found in mouse embryonic stem cells via a hidden Markov model.
-
10.1186/1471-2105-11-557, 2992069, 21073706
-
Larson JL, Yuan GC. Epigenetic domains found in mouse embryonic stem cells via a hidden Markov model. BMC Bioinformatics 2010, 11:557. 10.1186/1471-2105-11-557, 2992069, 21073706.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 557
-
-
Larson, J.L.1
Yuan, G.C.2
-
31
-
-
79953060951
-
Comprehensive analysis of the chromatin landscape in Drosophila melanogaster.
-
10.1038/nature09725, 3109908, 21179089
-
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. Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature 2011, 471:480-485. 10.1038/nature09725, 3109908, 21179089.
-
(2011)
Nature
, vol.471
, pp. 480-485
-
-
Kharchenko, P.V.1
Alekseyenko, A.A.2
Schwartz, Y.B.3
Minoda, A.4
Riddle, N.C.5
Ernst, J.6
Sabo, P.J.7
Larschan, E.8
Gorchakov, A.A.9
Gu, T.10
Linder-Basso, D.11
Plachetka, A.12
Shanower, G.13
Tolstorukov, M.Y.14
Luquette, L.J.15
Xi, R.16
Jung, Y.L.17
Park, R.W.18
Bishop, E.P.19
Canfield, T.K.20
Sandstrom, R.21
Thurman, R.E.22
MacAlpine, D.M.23
Stamatoyannopoulos, J.A.24
Kellis, M.25
Elgin, S.C.26
Kuroda, M.I.27
Pirrotta, V.28
Karpen, G.H.29
Park, P.J.30
more..
-
32
-
-
79953046943
-
A cis-regulatory map of the Drosophila genome.
-
10.1038/nature09990, 3179250, 21430782
-
Negre N, Brown CD, Ma L, Bristow CA, Miller SW, Wagner U, Kheradpour P, Eaton ML, Loriaux P, Sealfon R, Li Z, Ishii H, Spokony RF, Chen J, Hwang L, Cheng C, Auburn RP, Davis MB, Domanus M, Shah PK, Morrison CA, Zieba J, Suchy S, Senderowicz L, Victorsen A, Bild NA, Grundstad AJ, Hanley D, MacAlpine DM, Mannervik M, et al. A cis-regulatory map of the Drosophila genome. Nature 2011, 471:527-531. 10.1038/nature09990, 3179250, 21430782.
-
(2011)
Nature
, vol.471
, pp. 527-531
-
-
Negre, N.1
Brown, C.D.2
Ma, L.3
Bristow, C.A.4
Miller, S.W.5
Wagner, U.6
Kheradpour, P.7
Eaton, M.L.8
Loriaux, P.9
Sealfon, R.10
Li, Z.11
Ishii, H.12
Spokony, R.F.13
Chen, J.14
Hwang, L.15
Cheng, C.16
Auburn, R.P.17
Davis, M.B.18
Domanus, M.19
Shah, P.K.20
Morrison, C.A.21
Zieba, J.22
Suchy, S.23
Senderowicz, L.24
Victorsen, A.25
Bild, N.A.26
Grundstad, A.J.27
Hanley, D.28
MacAlpine, D.M.29
Mannervik, M.30
more..
-
33
-
-
18844376580
-
Robust analysis of linear models.
-
McKean JW. Robust analysis of linear models. Stat Sci 2004, 19:562-570.
-
(2004)
Stat Sci
, vol.19
, pp. 562-570
-
-
McKean, J.W.1
-
34
-
-
84862822000
-
ENCODE ChIP-Seq data describing histone modifications.
-
ENCODE ChIP-Seq data describing histone modifications. , http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHistone/
-
-
-
-
35
-
-
84890801664
-
ENCODE ChIP-Seq data describing transcription factor binding.
-
ENCODE ChIP-Seq data describing transcription factor binding. , http://hgdownload.cse.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeYaleChIPseq/
-
-
-
-
36
-
-
67649292737
-
Unlocking the secrets of the genome.
-
10.1038/459927a, 2843545, 19536255
-
Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, Micklem G, Piano F, Snyder M, Stein L, White KP, Waterston RH. Unlocking the secrets of the genome. Nature 2009, 459:927-930. 10.1038/459927a, 2843545, 19536255.
-
(2009)
Nature
, vol.459
, pp. 927-930
-
-
Celniker, S.E.1
Dillon, L.A.2
Gerstein, M.B.3
Gunsalus, K.C.4
Henikoff, S.5
Karpen, G.H.6
Kellis, M.7
Lai, E.C.8
Lieb, J.D.9
MacAlpine, D.M.10
Micklem, G.11
Piano, F.12
Snyder, M.13
Stein, L.14
White, K.P.15
Waterston, R.H.16
-
37
-
-
32544442422
-
Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells.
-
10.1186/gb-2005-6-8-r64, 1273631, 16086846
-
Brodsky AS, Meyer CA, Swinburne IA, Hall G, Keenan BJ, Liu XS, Fox EA, Silver PA. Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells. Genome Biol 2005, 6:R64. 10.1186/gb-2005-6-8-r64, 1273631, 16086846.
-
(2005)
Genome Biol
, vol.6
-
-
Brodsky, A.S.1
Meyer, C.A.2
Swinburne, I.A.3
Hall, G.4
Keenan, B.J.5
Liu, X.S.6
Fox, E.A.7
Silver, P.A.8
-
38
-
-
61649096408
-
Expression profile of CREB knockdown in myeloid leukemia cells.
-
10.1186/1471-2407-8-264, 2647550, 18801183
-
Pellegrini M, Cheng JC, Voutila J, Judelson D, Taylor J, Nelson SF, Sakamoto KM. Expression profile of CREB knockdown in myeloid leukemia cells. BMC Cancer 2008, 8:264. 10.1186/1471-2407-8-264, 2647550, 18801183.
-
(2008)
BMC Cancer
, vol.8
, pp. 264
-
-
Pellegrini, M.1
Cheng, J.C.2
Voutila, J.3
Judelson, D.4
Taylor, J.5
Nelson, S.F.6
Sakamoto, K.M.7
-
39
-
-
44249091849
-
Automating dChip: toward reproducible sharing of microarray data analysis.
-
10.1186/1471-2105-9-231, 2390544, 18466620
-
Li C. Automating dChip: toward reproducible sharing of microarray data analysis. BMC Bioinformatics 2008, 9:231. 10.1186/1471-2105-9-231, 2390544, 18466620.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 231
-
-
Li, C.1
-
40
-
-
0035942271
-
Significance analysis of microarrays applied to the ionizing radiation response.
-
10.1073/pnas.091062498, 33173, 11309499
-
Tusher VG, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001, 98:5116-5121. 10.1073/pnas.091062498, 33173, 11309499.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 5116-5121
-
-
Tusher, V.G.1
Tibshirani, R.2
Chu, G.3
-
41
-
-
0347125328
-
JASPAR: an open-access database for eukaryotic transcription factor binding profiles.
-
10.1093/nar/gkh012, 308747, 14681366
-
Sandelin A, Alkema W, Engstrom P, Wasserman WW, Lenhard B. JASPAR: an open-access database for eukaryotic transcription factor binding profiles. Nucleic Acids Res 2004, 32:D91-94. 10.1093/nar/gkh012, 308747, 14681366.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Sandelin, A.1
Alkema, W.2
Engstrom, P.3
Wasserman, W.W.4
Lenhard, B.5
-
42
-
-
77953811056
-
Prediction of Polycomb target genes in mouse embryonic stem cells.
-
10.1016/j.ygeno.2010.03.012, 20353814
-
Liu Y, Shao Z, Yuan GC. Prediction of Polycomb target genes in mouse embryonic stem cells. Genomics 2010, 96:17-26. 10.1016/j.ygeno.2010.03.012, 20353814.
-
(2010)
Genomics
, vol.96
, pp. 17-26
-
-
Liu, Y.1
Shao, Z.2
Yuan, G.C.3
-
43
-
-
34347345081
-
Whole-genome cartography of estrogen receptor alpha binding sites.
-
10.1371/journal.pgen.0030087, 1885282, 17542648
-
Lin CY, Vega VB, Thomsen JS, Zhang T, Kong SL, Xie M, Chiu KP, Lipovich L, Barnett DH, Stossi F, Yeo A, George J, Kuznetsov VA, Lee YK, Charn TH, Palanisamy N, Miller LD, Cheung E, Katzenellenbogen BS, Ruan Y, Bourque G, Wei CL, Liu ET. Whole-genome cartography of estrogen receptor alpha binding sites. PLoS Genet 2007, 3:e87. 10.1371/journal.pgen.0030087, 1885282, 17542648.
-
(2007)
PLoS Genet
, vol.3
-
-
Lin, C.Y.1
Vega, V.B.2
Thomsen, J.S.3
Zhang, T.4
Kong, S.L.5
Xie, M.6
Chiu, K.P.7
Lipovich, L.8
Barnett, D.H.9
Stossi, F.10
Yeo, A.11
George, J.12
Kuznetsov, V.A.13
Lee, Y.K.14
Charn, T.H.15
Palanisamy, N.16
Miller, L.D.17
Cheung, E.18
Katzenellenbogen, B.S.19
Ruan, Y.20
Bourque, G.21
Wei, C.L.22
Liu, E.T.23
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