-
1
-
-
34447098370
-
A chromatin landmark and transcription initiation at most promoters in human cells.
-
10.1016/j.cell.2007.05.042, 3200295, 17632057
-
Guenther MG, Levine SS, Boyer LA, Jaenisch R, Young RA. A chromatin landmark and transcription initiation at most promoters in human cells. Cell 2007, 130:77-88. 10.1016/j.cell.2007.05.042, 3200295, 17632057.
-
(2007)
Cell
, vol.130
, pp. 77-88
-
-
Guenther, M.G.1
Levine, S.S.2
Boyer, L.A.3
Jaenisch, R.4
Young, R.A.5
-
2
-
-
34047116826
-
Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome.
-
10.1038/ng1990, 17334365
-
Weber M, Hellmann I, Stadler MB, Ramos L, Paabo S, Rebhan M, Schubeler D. Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome. Nat Genet 2007, 39:457-466. 10.1038/ng1990, 17334365.
-
(2007)
Nat Genet
, vol.39
, pp. 457-466
-
-
Weber, M.1
Hellmann, I.2
Stadler, M.B.3
Ramos, L.4
Paabo, S.5
Rebhan, M.6
Schubeler, D.7
-
3
-
-
34147197541
-
DNA methylation dictates histone H3K4 methylation.
-
10.1128/MCB.02291-06, 1899905, 17242185
-
Okitsu CY, Hsieh CL. DNA methylation dictates histone H3K4 methylation. Mol Cell Biol 2007, 27:2746-2757. 10.1128/MCB.02291-06, 1899905, 17242185.
-
(2007)
Mol Cell Biol
, vol.27
, pp. 2746-2757
-
-
Okitsu, C.Y.1
Hsieh, C.L.2
-
4
-
-
70349272130
-
KDM1B is a histone H3K4 demethylase required to establish maternal genomic imprints.
-
10.1038/nature08315, 19727073
-
Ciccone DN, Su H, Hevi S, Gay F, Lei H, Bajko J, Xu G, Li E, Chen T. KDM1B is a histone H3K4 demethylase required to establish maternal genomic imprints. Nature 2009, 461:415-418. 10.1038/nature08315, 19727073.
-
(2009)
Nature
, vol.461
, pp. 415-418
-
-
Ciccone, D.N.1
Su, H.2
Hevi, S.3
Gay, F.4
Lei, H.5
Bajko, J.6
Xu, G.7
Li, E.8
Chen, T.9
-
5
-
-
58149156264
-
The lysine demethylase LSD1 (KDM1) is required for maintenance of global DNA methylation.
-
10.1038/ng.268, 19098913
-
Wang J, Hevi S, Kurash JK, Lei H, Gay F, Bajko J, Su H, Sun W, Chang H, Xu G, Gaudet F, Li E, Chen T. The lysine demethylase LSD1 (KDM1) is required for maintenance of global DNA methylation. Nat Genet 2009, 41:125-129. 10.1038/ng.268, 19098913.
-
(2009)
Nat Genet
, vol.41
, pp. 125-129
-
-
Wang, J.1
Hevi, S.2
Kurash, J.K.3
Lei, H.4
Gay, F.5
Bajko, J.6
Su, H.7
Sun, W.8
Chang, H.9
Xu, G.10
Gaudet, F.11
Li, E.12
Chen, T.13
-
6
-
-
34548603504
-
Structure of Dnmt3a bound to Dnmt3L suggests a model for de novo DNA methylation.
-
10.1038/nature06146, 2712830, 17713477
-
Jia D, Jurkowska RZ, Zhang X, Jeltsch A, Cheng X. Structure of Dnmt3a bound to Dnmt3L suggests a model for de novo DNA methylation. Nature 2007, 449:248-251. 10.1038/nature06146, 2712830, 17713477.
-
(2007)
Nature
, vol.449
, pp. 248-251
-
-
Jia, D.1
Jurkowska, R.Z.2
Zhang, X.3
Jeltsch, A.4
Cheng, X.5
-
7
-
-
34547725157
-
DNMT3L connects unmethylated lysine 4 of histone H3 to de novo methylation of DNA.
-
10.1038/nature05987, 2650820, 17687327
-
Ooi SK, Qiu C, Bernstein E, Li K, Jia D, Yang Z, Erdjument-Bromage H, Tempst P, Lin SP, Allis CD, Cheng X, Bestor TH. DNMT3L connects unmethylated lysine 4 of histone H3 to de novo methylation of DNA. Nature 2007, 448:714-717. 10.1038/nature05987, 2650820, 17687327.
-
(2007)
Nature
, vol.448
, pp. 714-717
-
-
Ooi, S.K.1
Qiu, C.2
Bernstein, E.3
Li, K.4
Jia, D.5
Yang, Z.6
Erdjument-Bromage, H.7
Tempst, P.8
Lin, S.P.9
Allis, C.D.10
Cheng, X.11
Bestor, T.H.12
-
8
-
-
0023216178
-
Cell culture of human colon adenomas and carcinomas.
-
Willson JK, Bittner GN, Oberley TD, Meisner LF, Weese JL. Cell culture of human colon adenomas and carcinomas. Cancer Res 1987, 47:2704-2713.
-
(1987)
Cancer Res
, vol.47
, pp. 2704-2713
-
-
Willson, J.K.1
Bittner, G.N.2
Oberley, T.D.3
Meisner, L.F.4
Weese, J.L.5
-
9
-
-
33646474127
-
Genome-wide analysis of menin binding provides insights into MEN1 tumorigenesis.
-
10.1371/journal.pgen.0020051, 1428788, 16604156
-
Scacheri PC, Davis S, Odom DT, Crawford GE, Perkins S, Halawi MJ, Agarwal SK, Marx SJ, Spiegel AM, Meltzer PS, Collins FS. Genome-wide analysis of menin binding provides insights into MEN1 tumorigenesis. PLoS Genet 2006, 2:e51. 10.1371/journal.pgen.0020051, 1428788, 16604156.
-
(2006)
PLoS Genet
, vol.2
-
-
Scacheri, P.C.1
Davis, S.2
Odom, D.T.3
Crawford, G.E.4
Perkins, S.5
Halawi, M.J.6
Agarwal, S.K.7
Marx, S.J.8
Spiegel, A.M.9
Meltzer, P.S.10
Collins, F.S.11
-
10
-
-
38649099445
-
High-resolution mapping and characterization of open chromatin across the genome.
-
10.1016/j.cell.2007.12.014, 2669738, 18243105
-
Boyle AP, Davis S, Shulha HP, Meltzer P, Margulies EH, Weng Z, Furey TS, Crawford GE. High-resolution mapping and characterization of open chromatin across the genome. Cell 2008, 132:311-322. 10.1016/j.cell.2007.12.014, 2669738, 18243105.
-
(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
Weng, Z.6
Furey, T.S.7
Crawford, G.E.8
-
11
-
-
55549097836
-
Mapping short DNA sequencing reads and calling variants using mapping quality scores.
-
10.1101/gr.078212.108, 2577856, 18714091
-
Li H, Ruan J, Durbin R. Mapping short DNA sequencing reads and calling variants using mapping quality scores. Genome Res 2008, 18:1851-1858. 10.1101/gr.078212.108, 2577856, 18714091.
-
(2008)
Genome Res
, vol.18
, pp. 1851-1858
-
-
Li, H.1
Ruan, J.2
Durbin, R.3
-
12
-
-
54949147307
-
F-Seq: a feature density estimator for high-throughput sequence tags.
-
10.1093/bioinformatics/btn480, 2732284, 18784119
-
Boyle AP, Guinney J, Crawford GE, Furey TS. F-Seq: a feature density estimator for high-throughput sequence tags. Bioinformatics 2008, 24:2537-2538. 10.1093/bioinformatics/btn480, 2732284, 18784119.
-
(2008)
Bioinformatics
, vol.24
, pp. 2537-2538
-
-
Boyle, A.P.1
Guinney, J.2
Crawford, G.E.3
Furey, T.S.4
-
13
-
-
7244232714
-
CDX1 expression is reduced in colorectal carcinoma and is associated with promoter hypermethylation.
-
10.1002/path.1641, 15378566
-
Pilozzi E, Onelli MR, Ziparo V, Mercantini P, Ruco L. CDX1 expression is reduced in colorectal carcinoma and is associated with promoter hypermethylation. J Pathol 2004, 204:289-295. 10.1002/path.1641, 15378566.
-
(2004)
J Pathol
, vol.204
, pp. 289-295
-
-
Pilozzi, E.1
Onelli, M.R.2
Ziparo, V.3
Mercantini, P.4
Ruco, L.5
-
14
-
-
43049168707
-
Bone morphogenic protein 3 inactivation is an early and frequent event in colorectal cancer development.
-
10.1002/gcc.20552, 18311777
-
Loh K, Chia JA, Greco S, Cozzi SJ, Buttenshaw RL, Bond CE, Simms LA, Pike T, Young JP, Jass JR, Spring KJ, Leggett BA, Whitehall VL. Bone morphogenic protein 3 inactivation is an early and frequent event in colorectal cancer development. Genes Chromosomes Cancer 2008, 47:449-460. 10.1002/gcc.20552, 18311777.
-
(2008)
Genes Chromosomes Cancer
, vol.47
, pp. 449-460
-
-
Loh, K.1
Chia, J.A.2
Greco, S.3
Cozzi, S.J.4
Buttenshaw, R.L.5
Bond, C.E.6
Simms, L.A.7
Pike, T.8
Young, J.P.9
Jass, J.R.10
Spring, K.J.11
Leggett, B.A.12
Whitehall, V.L.13
-
15
-
-
13144307115
-
Biallelic inactivation of hMLH1 by epigenetic gene silencing, a novel mechanism causing human MSI cancers.
-
10.1073/pnas.95.15.8698, 21139, 9671741
-
Veigl ML, Kasturi L, Olechnowicz J, Ma AH, Lutterbaugh JD, Periyasamy S, Li GM, Drummond J, Modrich PL, Sedwick WD, Markowitz SD. Biallelic inactivation of hMLH1 by epigenetic gene silencing, a novel mechanism causing human MSI cancers. Proc Natl Acad Sci USA 1998, 95:8698-8702. 10.1073/pnas.95.15.8698, 21139, 9671741.
-
(1998)
Proc Natl Acad Sci USA
, vol.95
, pp. 8698-8702
-
-
Veigl, M.L.1
Kasturi, L.2
Olechnowicz, J.3
Ma, A.H.4
Lutterbaugh, J.D.5
Periyasamy, S.6
Li, G.M.7
Drummond, J.8
Modrich, P.L.9
Sedwick, W.D.10
Markowitz, S.D.11
-
16
-
-
80054880084
-
DNA methylation directly silences genes with non-CpG island promoters and establishes a nucleosome occupied promoter.
-
10.1093/hmg/ddr356, 21835883
-
Han H, Cortez CC, Yang X, Nichols PW, Jones PA, Liang G. DNA methylation directly silences genes with non-CpG island promoters and establishes a nucleosome occupied promoter. Hum Mol Genet 2011, 20:4299-4310. 10.1093/hmg/ddr356, 21835883.
-
(2011)
Hum Mol Genet
, vol.20
, pp. 4299-4310
-
-
Han, H.1
Cortez, C.C.2
Yang, X.3
Nichols, P.W.4
Jones, P.A.5
Liang, G.6
-
17
-
-
33646070846
-
A bivalent chromatin structure marks key developmental genes in embryonic stem cells.
-
10.1016/j.cell.2006.02.041, 16630819
-
Bernstein BE, Mikkelsen TS, Xie X, Kamal M, Huebert DJ, Cuff J, Fry B, Meissner A, Wernig M, Plath K, Jaenisch R, Wagschal A, Feil R, Schreiber SL, Lander ES. A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell 2006, 125:315-326. 10.1016/j.cell.2006.02.041, 16630819.
-
(2006)
Cell
, vol.125
, pp. 315-326
-
-
Bernstein, B.E.1
Mikkelsen, T.S.2
Xie, X.3
Kamal, M.4
Huebert, D.J.5
Cuff, J.6
Fry, B.7
Meissner, A.8
Wernig, M.9
Plath, K.10
Jaenisch, R.11
Wagschal, A.12
Feil, R.13
Schreiber, S.L.14
Lander, E.S.15
-
18
-
-
75549084894
-
PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium.
-
10.1093/nar/gkp1019, 2808919, 20015972
-
Mi H, Dong Q, Muruganujan A, Gaudet P, Lewis S, Thomas PD. PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium. Nucleic Acids Res 2010, 38:D204-210. 10.1093/nar/gkp1019, 2808919, 20015972.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Mi, H.1
Dong, Q.2
Muruganujan, A.3
Gaudet, P.4
Lewis, S.5
Thomas, P.D.6
-
19
-
-
32044442759
-
Promoter features related to tissue specificity as measured by Shannon entropy.
-
10.1186/gb-2005-6-4-r33, 1088961, 15833120
-
Schug J, Schuller WP, Kappen C, Salbaum JM, Bucan M, Stoeckert CJ. Promoter features related to tissue specificity as measured by Shannon entropy. Genome Biol 2005, 6:R33. 10.1186/gb-2005-6-4-r33, 1088961, 15833120.
-
(2005)
Genome Biol
, vol.6
-
-
Schug, J.1
Schuller, W.P.2
Kappen, C.3
Salbaum, J.M.4
Bucan, M.5
Stoeckert, C.J.6
-
20
-
-
44349131472
-
Gene silencing in cancer by histone H3 lysine 27 trimethylation independent of promoter DNA methylation.
-
10.1038/ng.159, 18488029
-
Kondo Y, Shen L, Cheng AS, Ahmed S, Boumber Y, Charo C, Yamochi T, Urano T, Furukawa K, Kwabi-Addo B, Gold DL, Sekido Y, Huang TH, Issa JP. Gene silencing in cancer by histone H3 lysine 27 trimethylation independent of promoter DNA methylation. Nat Genet 2008, 40:741-750. 10.1038/ng.159, 18488029.
-
(2008)
Nat Genet
, vol.40
, pp. 741-750
-
-
Kondo, Y.1
Shen, L.2
Cheng, A.S.3
Ahmed, S.4
Boumber, Y.5
Charo, C.6
Yamochi, T.7
Urano, T.8
Furukawa, K.9
Kwabi-Addo, B.10
Gold, D.L.11
Sekido, Y.12
Huang, T.H.13
Issa, J.P.14
-
21
-
-
51349105905
-
Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line.
-
10.1073/pnas.0806437105, 2529074, 18753622
-
Gal-Yam EN, Egger G, Iniguez L, Holster H, Einarsson S, Zhang X, Lin JC, Liang G, Jones PA, Tanay A. Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line. Proc Natl Acad Sci USA 2008, 105:12979-12984. 10.1073/pnas.0806437105, 2529074, 18753622.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 12979-12984
-
-
Gal-Yam, E.N.1
Egger, G.2
Iniguez, L.3
Holster, H.4
Einarsson, S.5
Zhang, X.6
Lin, J.C.7
Liang, G.8
Jones, P.A.9
Tanay, A.10
-
22
-
-
36549061004
-
RNA polymerase is poised for activation across the genome.
-
10.1038/ng.2007.21, 2365887, 17994021
-
Muse GW, Gilchrist DA, Nechaev S, Shah R, Parker JS, Grissom SF, Zeitlinger J, Adelman K. RNA polymerase is poised for activation across the genome. Nat Genet 2007, 39:1507-1511. 10.1038/ng.2007.21, 2365887, 17994021.
-
(2007)
Nat Genet
, vol.39
, pp. 1507-1511
-
-
Muse, G.W.1
Gilchrist, D.A.2
Nechaev, S.3
Shah, R.4
Parker, J.S.5
Grissom, S.F.6
Zeitlinger, J.7
Adelman, K.8
-
23
-
-
57849109058
-
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters.
-
10.1126/science.1162228, 2833333, 19056941
-
Core LJ, Waterfall JJ, Lis JT. Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science 2008, 322:1845-1848. 10.1126/science.1162228, 2833333, 19056941.
-
(2008)
Science
, vol.322
, pp. 1845-1848
-
-
Core, L.J.1
Waterfall, J.J.2
Lis, J.T.3
-
24
-
-
79959797177
-
Tissue-specific demethylation in CpG-poor promoters during cellular differentiation.
-
10.1093/hmg/ddr170, 21505077
-
Nagae G, Isagawa T, Shiraki N, Fujita T, Yamamoto S, Tsutsumi S, Nonaka A, Yoshiba S, Matsusaka K, Midorikawa Y, Ishikawa S, Soejima H, Fukayama M, Suemori H, Nakatsuji N, Kume S, Aburatani H. Tissue-specific demethylation in CpG-poor promoters during cellular differentiation. Hum Mol Genet 2011, 20:2710-2721. 10.1093/hmg/ddr170, 21505077.
-
(2011)
Hum Mol Genet
, vol.20
, pp. 2710-2721
-
-
Nagae, G.1
Isagawa, T.2
Shiraki, N.3
Fujita, T.4
Yamamoto, S.5
Tsutsumi, S.6
Nonaka, A.7
Yoshiba, S.8
Matsusaka, K.9
Midorikawa, Y.10
Ishikawa, S.11
Soejima, H.12
Fukayama, M.13
Suemori, H.14
Nakatsuji, N.15
Kume, S.16
Aburatani, H.17
|