-
1
-
-
34249299791
-
The complex language of chromatin regulation during transcription
-
DOI 10.1038/nature05915, PII NATURE05915
-
Berger, S.L. (2007) The complex language of chromatin regulation during transcription. Nature, 447, 407-412. (Pubitemid 46816746)
-
(2007)
Nature
, vol.447
, Issue.7143
, pp. 407-412
-
-
Berger, S.L.1
-
2
-
-
35848951163
-
Covalent modifications of histones during development and disease pathogenesis
-
DOI 10.1038/nsmb1337, PII NSMB1337
-
Bhaumik, S.R., Smith, E. and Shilatifard, A. (2007) Covalent modifications of histones during development and disease pathogenesis. Nat. Struct. Mol. Biol., 14, 1008-1016. (Pubitemid 350060343)
-
(2007)
Nature Structural and Molecular Biology
, vol.14
, Issue.11
, pp. 1008-1016
-
-
Bhaumik, S.R.1
Smith, E.2
Shilatifard, A.3
-
3
-
-
33847070442
-
The Role of Chromatin during Transcription
-
DOI 10.1016/j.cell.2007.01.015, PII S0092867407001092
-
Li, B., Carey, M. and Workman, J.L. (2007) The role of chromatin during transcription. Cell, 128, 707-719. (Pubitemid 46273570)
-
(2007)
Cell
, vol.128
, Issue.4
, pp. 707-719
-
-
Li, B.1
Carey, M.2
Workman, J.L.3
-
4
-
-
35848961668
-
How chromatin-binding modules interpret histone modifications: Lessons from professional pocket pickers
-
DOI 10.1038/nsmb1338, PII NSMB1338
-
Taverna, S.D., Li, H., Ruthenburg, A.J., Allis, C.D. and Patel, D.J. (2007) How chromatin-binding modules interpret histone modifications: lessons from professional pocket pickers. Nat. Struct. Mol. Biol., 14, 1025-1040. (Pubitemid 350060344)
-
(2007)
Nature Structural and Molecular Biology
, vol.14
, Issue.11
, pp. 1025-1040
-
-
Taverna, S.D.1
Li, H.2
Ruthenburg, A.J.3
Allis, C.D.4
Patel, D.J.5
-
5
-
-
70350149728
-
Recruitment of polycomb group complexes and their role in the dynamic regulation of cell fate choice
-
Schuettengruber, B. and Cavalli, G. (2009) Recruitment of polycomb group complexes and their role in the dynamic regulation of cell fate choice. Development, 136, 3531-3542.
-
(2009)
Development
, vol.136
, pp. 3531-3542
-
-
Schuettengruber, B.1
Cavalli, G.2
-
6
-
-
33745699100
-
From genetics to epigenetics: The tale of Polycomb group and trithorax group genes
-
Grimaud, C., Negre, N. and Cavalli, G. (2006) From genetics to epigenetics: the tale of Polycomb group and trithorax group genes. Chromosome Res., 14, 363-375.
-
(2006)
Chromosome Res.
, vol.14
, pp. 363-375
-
-
Grimaud, C.1
Negre, N.2
Cavalli, G.3
-
7
-
-
44649200464
-
Polycomb complexes and epigenetic states
-
Schwartz, Y.B. and Pirrotta, V. (2008) Polycomb complexes and epigenetic states. Curr. Opin. Cell Biol., 20, 266-273.
-
(2008)
Curr. Opin. Cell Biol.
, vol.20
, pp. 266-273
-
-
Schwartz, Y.B.1
Pirrotta, V.2
-
8
-
-
33847084602
-
Genome Regulation by Polycomb and Trithorax Proteins
-
DOI 10.1016/j.cell.2007.02.009, PII S0092867407001900
-
Schuettengruber, B., Chourrout, D., Vervoort, M., Leblanc, B. and Cavalli, G. (2007) Genome regulation by polycomb and trithorax proteins. Cell, 128, 735-745. (Pubitemid 46273581)
-
(2007)
Cell
, vol.128
, Issue.4
, pp. 735-745
-
-
Schuettengruber, B.1
Chourrout, D.2
Vervoort, M.3
Leblanc, B.4
Cavalli, G.5
-
9
-
-
0037524702
-
The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: Linking transcriptional elongation to histone methylation
-
DOI 10.1016/S1097-2765(03)00091-1
-
Krogan, N.J., Dover, J., Wood, A., Schneider, J., Heidt, J., Boateng, M.A., Dean, K., Ryan, O.W., Golshani, A., Johnston, M. et al. (2003) The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation. Mol. Cell, 11, 721-729. (Pubitemid 36385125)
-
(2003)
Molecular Cell
, vol.11
, Issue.3
, pp. 721-729
-
-
Krogan, N.J.1
Dover, J.2
Wood, A.3
Schneider, J.4
Heidt, J.5
Boateng, M.A.6
Dean, K.7
Ryan, O.W.8
Golshani, A.9
Johnston, M.10
Greenblatt, J.F.11
Shilatifard, A.12
-
10
-
-
33746324216
-
Chromatin modifications by methylation and ubiquitination: Implications in the regulation of gene expression
-
DOI 10.1146/annurev.biochem.75.103004.142422
-
Shilatifard, A. (2006) Chromatin modifications by methylation and ubiquitination: implications in the regulation of gene expression. Annu. Rev. Biochem., 75, 243-269. (Pubitemid 44118033)
-
(2006)
Annual Review of Biochemistry
, vol.75
, pp. 243-269
-
-
Shilatifard, A.1
-
11
-
-
0037248944
-
Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter
-
DOI 10.1016/S1097-2765(02)00802-X
-
Wood, A., Krogan, N.J., Dover, J., Schneider, J., Heidt, J., Boateng, M.A., Dean, K., Golshani, A., Zhang, Y., Greenblatt, J.F. et al. (2003) Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter. Mol. Cell, 11, 267-274. (Pubitemid 36126607)
-
(2003)
Molecular Cell
, vol.11
, Issue.1
, pp. 267-274
-
-
Wood, A.1
Krogan, N.J.2
Dover, J.3
Schneider, J.4
Heidt, J.5
Boateng, M.A.6
Dean, K.7
Golshani, A.8
Zhang, Y.9
Greenblatt, J.F.10
Johnston, M.11
Shilatifard, A.12
-
12
-
-
34848911602
-
Selective Anchoring of TFIID to Nucleosomes by Trimethylation of Histone H3 Lysine 4
-
DOI 10.1016/j.cell.2007.08.016, PII S0092867407010793
-
Vermeulen, M., Mulder, K.W., Denissov, S., Pijnappel, W.W., van Schaik, F.M., Varier, R.A., Baltissen, M.P., Stunnenberg, H.G., Mann, M. and Timmers, H.T. (2007) Selective anchoring of TFIID to nucleosomes by trimethylation of histone H3 lysine 4. Cell, 131, 58-69. (Pubitemid 47498531)
-
(2007)
Cell
, vol.131
, Issue.1
, pp. 58-69
-
-
Vermeulen, M.1
Mulder, K.W.2
Denissov, S.3
Pijnappel, W.W.M.P.4
Van Schaik, F.M.A.5
Varier, R.A.6
Baltissen, M.P.A.7
Stunnenberg, H.G.8
Mann, M.9
Timmers, H.Th.M.10
-
13
-
-
71949107301
-
Global analysis of H3K4 methylation defines MLL family member targets and points to a role for MLL1-mediated H3K4 methylation in the regulation of transcriptional initiation by RNA polymerase II
-
Wang, P., Lin, C., Smith, E.R., Guo, H., Sanderson, B.W., Wu, M., Gogol, M., Alexander, T., Seidel, C., Wiedemann, L.M. et al. (2009) Global analysis of H3K4 methylation defines MLL family member targets and points to a role for MLL1-mediated H3K4 methylation in the regulation of transcriptional initiation by RNA polymerase II. Mol. Cell Biol., 29, 6074-6085.
-
(2009)
Mol. Cell Biol.
, vol.29
, pp. 6074-6085
-
-
Wang, P.1
Lin, C.2
Smith, E.R.3
Guo, H.4
Sanderson, B.W.5
Wu, M.6
Gogol, M.7
Alexander, T.8
Seidel, C.9
Wiedemann, L.M.10
-
14
-
-
34447330337
-
Functional dissection of the ash2 and ash1 transcriptomes provides insights into the transcriptional basis of wing phenotypes and reveals conserved protein interactions
-
Beltran, S., Angulo, M., Pignatelli, M., Serras, F. and Corominas, M. (2007) Functional dissection of the ash2 and ash1 transcriptomes provides insights into the transcriptional basis of wing phenotypes and reveals conserved protein interactions. Genome Biol., 8, R67.
-
(2007)
Genome Biol.
, vol.8
-
-
Beltran, S.1
Angulo, M.2
Pignatelli, M.3
Serras, F.4
Corominas, M.5
-
15
-
-
33748364351
-
Molecular regulation of H3K4 trimethylation by ASH2L, a shared subunit of MLL complexes
-
DOI 10.1038/nsmb1131, PII NSMB1131
-
Steward, M.M., Lee, J.S., O'Donovan, A., Wyatt, M., Bernstein, B.E. and Shilatifard, A. (2006) Molecular regulation of H3K4 trimethylation by ASH2L, a shared subunit of MLL complexes. Nat. Struct. Mol. Biol., 13, 852-854. (Pubitemid 44338781)
-
(2006)
Nature Structural and Molecular Biology
, vol.13
, Issue.9
, pp. 852-854
-
-
Steward, M.M.1
Lee, J.-S.2
O'Donovan, A.3
Wyatt, M.4
Bernstein, B.E.5
Shilatifard, A.6
-
16
-
-
0037039309
-
A trithorax-group complex purified from Saccharomyces cerevisiae is required for methylation of histone H3
-
DOI 10.1073/pnas.221596698
-
Nagy, P.L., Griesenbeck, J., Kornberg, R.D. and Cleary, M.L. (2002) A trithorax-group complex purified from Saccharomyces cerevisiae is required for methylation of histone H3. Proc. Natl Acad. Sci. USA, 99, 90-94. (Pubitemid 34060321)
-
(2002)
Proceedings of the National Academy of Sciences of the United States of America
, vol.99
, Issue.1
, pp. 90-94
-
-
Nagy, P.L.1
Griesenbec, J.2
Kornberg, R.D.3
Cleary, M.L.4
-
17
-
-
0037126594
-
The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue and methylates histone 3 lysine 4
-
DOI 10.1093/emboj/20.24.7137
-
Roguev, A., Schaft, D., Shevchenko, A., Pijnappel, W.W., Wilm, M., Aasland, R. and Stewart, A.F. (2001) The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue and methylates histone 3 lysine 4. EMBO J., 20, 7137-7148. (Pubitemid 34062305)
-
(2001)
EMBO Journal
, vol.20
, Issue.24
, pp. 7137-7148
-
-
Roguev, A.1
Schaft, D.2
Shevchenko, A.3
Pijnappel, W.W.M.P.4
Wilm, M.5
Aasland, R.6
Stewart, A.F.7
-
18
-
-
0037382574
-
Human Sin3 deacetylase and trithorax-related Set1/Ash2 histone H3-K4 methyltransferase are tethered together selectively by the cell-proliferation factor HCF-1
-
DOI 10.1101/gad.252103
-
Wysocka, J., Myers, M.P., Laherty, C.D., Eisenman, R.N. and Herr, W. (2003) Human Sin3 deacetylase and trithorax-related Set1/Ash2 histone H3-K4 methyltransferase are tethered together selectively by the cell-proliferation factor HCF-1. Genes Dev., 17, 896-911. (Pubitemid 36397377)
-
(2003)
Genes and Development
, vol.17
, Issue.7
, pp. 896-911
-
-
Wysocka, J.1
Myers, M.P.2
Laherty, C.D.3
Eisenman, R.N.4
Herr, W.5
-
19
-
-
33947152396
-
The Trithorax group protein Lid is a trimethyl histone H3K4 demethylase required for dMyc-induced cell growth
-
DOI 10.1101/gad.1523007
-
Secombe, J., Li, L., Carlos, L. and Eisenman, R.N. (2007) The Trithorax group protein Lid is a trimethyl histone H3K4 demethylase required for dMyc-induced cell growth. Genes Dev., 21, 537-551. (Pubitemid 46409469)
-
(2007)
Genes and Development
, vol.21
, Issue.5
, pp. 537-551
-
-
Secombe, J.1
Li, L.2
Carlos, L.3
Eisenman, R.N.4
-
20
-
-
34250823511
-
E2F Activation of S Phase Promoters via Association with HCF-1 and the MLL Family of Histone H3K4 Methyltransferases
-
DOI 10.1016/j.molcel.2007.05.030, PII S1097276507003310
-
Tyagi, S., Chabes, A.L., Wysocka, J. and Herr, W. (2007) E2F activation of S phase promoters via association with HCF-1 and the MLL family of histone H3K4 methyltransferases. Mol. Cell, 27, 107-119. (Pubitemid 46991384)
-
(2007)
Molecular Cell
, vol.27
, Issue.1
, pp. 107-119
-
-
Tyagi, S.1
Chabes, A.L.2
Wysocka, J.3
Herr, W.4
-
21
-
-
2942715029
-
Leukemia proto-oncoprotein MLL forms a SET1-like histone methyltransferase complex with menin to regulate Hox gene expression
-
DOI 10.1128/MCB.24.13.5639-5649.2004
-
Yokoyama, A., Wang, Z., Wysocka, J., Sanyal, M., Aufiero, D.J., Kitabayashi, I., Herr, W. and Cleary, M.L. (2004) Leukemia proto-oncoprotein MLL forms a SET1-like histone methyltransferase complex with menin to regulate Hox gene expression. Mol. Cell. Biol., 24, 5639-5649. (Pubitemid 38787950)
-
(2004)
Molecular and Cellular Biology
, vol.24
, Issue.13
, pp. 5639-5649
-
-
Yokoyama, A.1
Wang, Z.2
Wysocka, J.3
Sanyal, M.4
Aufiero, D.J.5
Kitabayashi, I.6
Herr, W.7
Cleary, M.L.8
-
22
-
-
0029840127
-
Molecular genetic analysis of Drosophila ash2, a member of the trithorax group required for imaginal disc pattern formation
-
Adamson, A.L. and Shearn, A. (1996) Molecular genetic analysis of Drosophila ash2, a member of the trithorax group required for imaginal disc pattern formation. Genetics, 144, 621-633. (Pubitemid 26325855)
-
(1996)
Genetics
, vol.144
, Issue.2
, pp. 621-633
-
-
Adamson, A.L.1
Shearn, A.2
-
23
-
-
8444227052
-
Activation and repression activities of ash2 in Drosophila wing imaginal discs
-
DOI 10.1242/dev.01380
-
Angulo, M., Corominas, M. and Serras, F. (2004) Activation and repression activities of ash2 in Drosophila wing imaginal discs. Development, 131, 4943-4953. (Pubitemid 39485352)
-
(2004)
Development
, vol.131
, Issue.20
, pp. 4943-4953
-
-
Angulo, M.1
Corominas, M.2
Serras, F.3
-
24
-
-
0037452889
-
Transcriptional network controlled by the trithorax-group gene ash2 in Drosophila melanogaster
-
DOI 10.1073/pnas.0538075100
-
Beltran, S., Blanco, E., Serras, F., Perez-Villamil, B., Guigo, R., Artavanis-Tsakonas, S. and Corominas, M. (2003) Transcriptional network controlled by the trithorax-group gene ash2 in Drosophila melanogaster. Proc. Natl Acad. Sci. USA, 100, 3293-3298. (Pubitemid 36356576)
-
(2003)
Proceedings of the National Academy of Sciences of the United States of America
, vol.100
, Issue.6
, pp. 3293-3298
-
-
Beltran, S.1
Blanco, E.2
Serras, F.3
Perez-Villamil, B.4
Guigo, R.5
Artavanis-Tsakonas, S.6
Corominas, M.7
-
25
-
-
33746600716
-
Histone trimethylation and the maintenance of transcriptional ON and OFF states by trxG and PcG proteins
-
DOI 10.1101/gad.388706
-
Papp, B. and Muller, J. (2006) Histone trimethylation and the maintenance of transcriptional ON and OFF states by trxG and PcG proteins. Genes Dev., 20, 2041-2054. (Pubitemid 44157456)
-
(2006)
Genes and Development
, vol.20
, Issue.15
, pp. 2041-2054
-
-
Papp, B.1
Muller, J.2
-
26
-
-
60149112271
-
PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls
-
Rozowsky, J., Euskirchen, G., Auerbach, R.K., Zhang, Z.D., Gibson, T., Bjornson, R., Carriero, N., Snyder, M. and Gerstein, M.B. (2009) PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls. Nat. Biotechnol., 27, 66-75.
-
(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
-
27
-
-
58149178565
-
The UCSC Genome Browser Database: Update 2009
-
Kuhn, R.M., Karolchik, D., Zweig, A.S., Wang, T., Smith, K.E., Rosenbloom, K.R., Rhead, B., Raney, B.J., Pohl, A., Pheasant, M. et al. (2009) The UCSC Genome Browser Database: update 2009. Nucleic Acids Res., 37, D755-D761.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Kuhn, R.M.1
Karolchik, D.2
Zweig, A.S.3
Wang, T.4
Smith, K.E.5
Rosenbloom, K.R.6
Rhead, B.7
Raney, B.J.8
Pohl, A.9
Pheasant, M.10
-
28
-
-
33846057724
-
NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
DOI 10.1093/nar/gkl842
-
Pruitt, K.D., Tatusova, T. and Maglott, D.R. (2007) NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res., 35, D61-D65. (Pubitemid 46056171)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.SUPPL. 1
-
-
Pruitt, K.D.1
Tatusova, T.2
Maglott, D.R.3
-
29
-
-
61449172037
-
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
-
Huang da, W., Sherman, B.T. and Lempicki, R.A. (2009) Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protoc., 4, 44-57.
-
(2009)
Nat. Protoc.
, vol.4
, pp. 44-57
-
-
Huang Da, W.1
Sherman, B.T.2
Lempicki, R.A.3
-
30
-
-
38549092091
-
Database resources of the National Center for Biotechnology Information
-
DOI 10.1093/nar/gkm1000
-
Wheeler, D.L., Barrett, T., Benson, D.A., Bryant, S.H., Canese, K., Chetvernin, V., Church, D.M., Dicuccio, M., Edgar, R., Federhen, S. et al. (2008) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 36, D13-D21. (Pubitemid 351149689)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.SUPPL. 1
-
-
Wheeler, D.L.1
Barrett, T.2
Benson, D.A.3
Bryant, S.H.4
Canese, K.5
Chetvernin, V.6
Church, D.M.7
Dicuccio, M.8
Edgar, R.9
Federhen, S.10
Feolo, M.11
Geer, L.Y.12
Helmberg, W.13
Kapustin, Y.14
Khovayko, O.15
Landsman, D.16
Lipman, D.J.17
Madden, T.L.18
Maglott, D.R.19
Miller, V.20
Ostell, J.21
Pruitt, K.D.22
Schuler, G.D.23
Shumway, M.24
Sequeira, E.25
Sherry, S.T.26
Sirotkin, K.27
Souvorov, A.28
Starchenko, G.29
Tatusov, R.L.30
Tatusova, T.A.31
Wagner, L.32
Yaschenko, E.33
more..
-
31
-
-
38549102535
-
FlyBase: Integration and improvements to query tools
-
DOI 10.1093/nar/gkm930
-
Wilson, R.J., Goodman, J.L. and Strelets, V.B. (2008) FlyBase: integration and improvements to query tools. Nucleic Acids Res., 36, D588-D593. (Pubitemid 351149790)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.SUPPL. 1
-
-
Wilson, R.J.1
Goodman, J.I.2
Strelets, V.B.3
-
33
-
-
34447506667
-
Quantifying similarity between motifs
-
Gupta, S., Stamatoyannopoulos, J.A., Bailey, T.L. and Noble, W.S. (2007) Quantifying similarity between motifs. Genome Biol., 8, R24.
-
(2007)
Genome Biol.
, vol.8
-
-
Gupta, S.1
Stamatoyannopoulos, J.A.2
Bailey, T.L.3
Noble, W.S.4
-
34
-
-
17444402501
-
Drosophila DNase I footprint database: A systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster
-
DOI 10.1093/bioinformatics/bti173
-
Bergman, C.M., Carlson, J.W. and Celniker, S.E. (2005) Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster. Bioinformatics, 21, 1747-1749. (Pubitemid 40542753)
-
(2005)
Bioinformatics
, vol.21
, Issue.8
, pp. 1747-1749
-
-
Bergman, C.M.1
Carlson, J.W.2
Celniker, S.E.3
-
35
-
-
33644876958
-
TRANSFAC and its module TRANSCompel: Transcriptional gene regulation in eukaryotes
-
Matys, V., Kel-Margoulis, O.V., Fricke, E., Liebich, I., Land, S., Barre-Dirrie, A., Reuter, I., Chekmenev, D., Krull, M., Hornischer, K. et al. (2006) TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes. Nucleic Acids Res., 34, D108-D110.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Matys, V.1
Kel-Margoulis, O.V.2
Fricke, E.3
Liebich, I.4
Land, S.5
Barre-Dirrie, A.6
Reuter, I.7
Chekmenev, D.8
Krull, M.9
Hornischer, K.10
-
36
-
-
75549083247
-
JASPAR 2010: The greatly expanded open-access database of transcription factor binding profiles
-
Portales-Casamar, E., Thongjuea, S., Kwon, A.T., Arenillas, D., Zhao, X., Valen, E., Yusuf, D., Lenhard, B., Wasserman, W.W. and Sandelin, A. (2010) JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. Nucleic Acids Res., 38, D105-D110.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Portales-Casamar, E.1
Thongjuea, S.2
Kwon, A.T.3
Arenillas, D.4
Zhao, X.5
Valen, E.6
Yusuf, D.7
Lenhard, B.8
Wasserman, W.W.9
Sandelin, A.10
-
37
-
-
46049087782
-
The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation
-
DOI 10.1093/bib/bbn016, Special Issue: Critical Technologies for Bioinformatics
-
Wingender, E. (2008) The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation. Brief Bioinform., 9, 326-332. (Pubitemid 351894493)
-
(2008)
Briefings in Bioinformatics
, vol.9
, Issue.4
, pp. 326-332
-
-
Wingender, E.1
-
38
-
-
47149117454
-
Evolution of genes and genomes on the Drosophila phylogeny
-
DOI 10.1038/nature06341, PII NATURE06341
-
Clark, A.G., Eisen, M.B., Smith, D.R., Bergman, C.M., Oliver, B., Markow, T.A., Kaufman, T.C., Kellis, M., Gelbart, W., Iyer, V.N. et al. (2007) Evolution of genes and genomes on the Drosophila phylogeny. Nature, 450, 203-218. (Pubitemid 351972300)
-
(2007)
Nature
, vol.450
, Issue.7167
, pp. 203-218
-
-
Clark, A.G.1
Eisen, M.B.2
Smith, D.R.3
Bergman, C.M.4
Oliver, B.5
Markow, T.A.6
Kaufman, T.C.7
Kellis, M.8
Gelbart, W.9
Iyer, V.N.10
Pollard, D.A.11
Sackton, T.B.12
Larracuente, A.M.13
Singh, N.D.14
Abad, J.P.15
Abt, D.N.16
Adryan, B.17
Aguade, M.18
Akashi, H.19
Anderson, W.W.20
Aquadro, C.F.21
Ardell, D.H.22
Arguello, R.23
Artieri, C.G.24
Barbash, D.A.25
Barker, D.26
Barsanti, P.27
Batterham, P.28
Batzoglou, S.29
Begun, D.30
Bhutkar, A.31
Blanco, E.32
Bosak, S.A.33
Bradley, R.K.34
Brand, A.D.35
Brent, M.R.36
Brooks, A.N.37
Brown, R.H.38
Butlin, R.K.39
Caggese, C.40
Calvi, B.R.41
Bernardo De Carvalho, A.42
Caspi, A.43
Castrezana, S.44
Celniker, S.E.45
Chang, J.L.46
Chapple, C.47
Chatterji, S.48
Chinwalla, A.49
Civetta, A.50
Clifton, S.W.51
Comeron, J.M.52
Costello, J.C.53
Coyne, J.A.54
Daub, J.55
David, R.G.56
Delcher, A.L.57
Delehaunty, K.58
Do, C.B.59
Ebling, H.60
Edwards, K.61
Eickbush, T.62
Evans, J.D.63
Filipski, A.64
Findeiss, S.65
Freyhult, E.66
Fulton, L.67
Fulton, R.68
Garcia, A.C.L.69
Gardiner, A.70
Garfield, D.A.71
Garvin, B.E.72
Gibson, G.73
Gilbert, D.74
Gnerre, S.75
Godfrey, J.76
Good, R.77
Gotea, V.78
Gravely, B.79
Greenberg, A.J.80
Griffiths-Jones, S.81
Gross, S.82
Guigo, R.83
Gustafson, E.A.84
more..
-
39
-
-
58849088872
-
Functional anatomy of polycomb and trithorax chromatin landscapes in Drosophila embryos
-
Schuettengruber, B., Ganapathi, M., Leblanc, B., Portoso, M., Jaschek, R., Tolhuis, B., van Lohuizen, M., Tanay, A. and Cavalli, G. (2009) Functional anatomy of polycomb and trithorax chromatin landscapes in Drosophila embryos. PLoS Biol., 7, e13.
-
(2009)
PLoS Biol.
, vol.7
-
-
Schuettengruber, B.1
Ganapathi, M.2
Leblanc, B.3
Portoso, M.4
Jaschek, R.5
Tolhuis, B.6
Van Lohuizen, M.7
Tanay, A.8
Cavalli, G.9
-
40
-
-
34249026300
-
High-Resolution Profiling of Histone Methylations in the Human Genome
-
DOI 10.1016/j.cell.2007.05.009, PII S0092867407006009
-
Barski, A., Cuddapah, S., Cui, K., Roh, T.Y., Schones, D.E., Wang, Z., Wei, G., Chepelev, I. and Zhao, K. (2007) High-resolution profiling of histone methylations in the human genome. Cell, 129, 823-837. (Pubitemid 46802390)
-
(2007)
Cell
, vol.129
, Issue.4
, 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
-
41
-
-
20744439655
-
DREF is required for efficient growth and cell cycle progression in Drosophila imaginal discs
-
DOI 10.1128/MCB.25.13.5590-5598.2005
-
Hyun, J., Jasper, H. and Bohmann, D. (2005) DREF is required for efficient growth and cell cycle progression in Drosophila imaginal discs. Mol. Cell. Biol., 25, 5590-5598. (Pubitemid 40853593)
-
(2005)
Molecular and Cellular Biology
, vol.25
, Issue.13
, pp. 5590-5598
-
-
Hyun, J.1
Jasper, H.2
Bohmann, D.3
-
42
-
-
0038523952
-
Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network
-
DOI 10.1101/gad.1066903
-
Orian, A., van Steensel, B., Delrow, J., Bussemaker, H.J., Li, L., Sawado, T., Williams, E., Loo, L.W., Cowley, S.M., Yost, C. et al. (2003) Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network. Genes Dev., 17, 1101-1114. (Pubitemid 36534985)
-
(2003)
Genes and Development
, vol.17
, Issue.9
, pp. 1101-1114
-
-
Orian, A.1
Van Steensel, B.2
Delrow, J.3
Bussemaker, H.J.4
Li, L.5
Sawado, T.6
Williams, E.7
Loo, L.W.M.8
Cowley, S.M.9
Yost, C.10
Pierce, S.11
Edgar, B.A.12
Parkhurst, S.M.13
Eisenman, R.N.14
-
43
-
-
70449106028
-
Modifications of RNA polymerase II are pivotal in regulating gene expression states
-
Brookes, E. and Pombo, A. (2009) Modifications of RNA polymerase II are pivotal in regulating gene expression states. EMBO Rep., 10, 1213-1219.
-
(2009)
EMBO Rep.
, vol.10
, pp. 1213-1219
-
-
Brookes, E.1
Pombo, A.2
-
44
-
-
69949156902
-
A hierarchy of H3K4me3 and H3K27me3 acquisition in spatial gene regulation in Xenopus embryos
-
Akkers, R.C., van Heeringen, S.J., Jacobi, U.G., Janssen- Megens, E.M., Francoijs, K.J., Stunnenberg, H.G. and Veenstra, G.J. (2009) A hierarchy of H3K4me3 and H3K27me3 acquisition in spatial gene regulation in Xenopus embryos. Dev. Cell, 17, 425-434.
-
(2009)
Dev. Cell
, vol.17
, pp. 425-434
-
-
Akkers, R.C.1
Van Heeringen, S.J.2
Jacobi, U.G.3
Janssen- Megens, E.M.4
Francoijs, K.J.5
Stunnenberg, H.G.6
Veenstra, G.J.7
-
45
-
-
74149094362
-
Partitioning the C. elegans genome by nucleosome modification, occupancy, and positioning
-
Gu, S.G. and Fire, A. (2010) Partitioning the C. elegans genome by nucleosome modification, occupancy, and positioning. Chromosoma, 119, 73-87.
-
(2010)
Chromosoma
, vol.119
, pp. 73-87
-
-
Gu, S.G.1
Fire, A.2
-
46
-
-
71149115489
-
Drosophila myc
-
Gallant, P. (2009) Drosophila Myc. Adv. Cancer Res., 103, 111-144.
-
(2009)
Adv. Cancer Res.
, vol.103
, pp. 111-144
-
-
Gallant, P.1
-
47
-
-
33646070846
-
A bivalent chromatin structure marks key developmental genes in embryonic stem cells
-
Bernstein, B.E., Mikkelsen, T.S., Xie, X., Kamal, M., Huebert, D.J., Cuff, J., Fry, B., Meissner, A., Wernig, M., Plath, K. et al. (2006) A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell, 125, 315-326.
-
(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
-
48
-
-
69949158155
-
The curious case of bivalent marks
-
Herz, H.M., Nakanishi, S. and Shilatifard, A. (2009) The curious case of bivalent marks. Dev. Cell, 17, 301-303.
-
(2009)
Dev. Cell
, vol.17
, pp. 301-303
-
-
Herz, H.M.1
Nakanishi, S.2
Shilatifard, A.3
-
49
-
-
77950809943
-
Monovalent and unpoised status of most genes in undifferentiated cell-enriched Drosophila testis
-
Gan, Q., Schones, D.E., Ho Eun, S., Wei, G., Cui, K., Zhao, K. and Chen, X. (2010) Monovalent and unpoised status of most genes in undifferentiated cell-enriched Drosophila testis. Genome Biol., 11, R42.
-
(2010)
Genome Biol.
, vol.11
-
-
Gan, Q.1
Schones, D.E.2
Ho Eun, S.3
Wei, G.4
Cui, K.5
Zhao, K.6
Chen, X.7
-
50
-
-
34447098370
-
A Chromatin Landmark and Transcription Initiation at Most Promoters in Human Cells
-
DOI 10.1016/j.cell.2007.05.042, PII S0092867407006812
-
Guenther, M.G., Levine, S.S., Boyer, L.A., Jaenisch, R. and Young, R.A. (2007) A chromatin landmark and transcription initiation at most promoters in human cells. Cell, 130, 77-88. (Pubitemid 47031323)
-
(2007)
Cell
, vol.130
, Issue.1
, pp. 77-88
-
-
Guenther, M.G.1
Levine, S.S.2
Boyer, L.A.3
Jaenisch, R.4
Young, R.A.5
-
51
-
-
33745225872
-
Genome-wide analysis of Polycomb targets in Drosophila melanogaster
-
DOI 10.1038/ng1817, PII N1817
-
Schwartz, Y.B., Kahn, T.G., Nix, D.A., Li, X.Y., Bourgon, R., Biggin, M. and Pirrotta, V. (2006) Genome-wide analysis of Polycomb targets in Drosophila melanogaster. Nat. Genet., 38, 700-705. (Pubitemid 43927314)
-
(2006)
Nature Genetics
, vol.38
, Issue.6
, pp. 700-705
-
-
Schwartz, Y.B.1
Kahn, T.G.2
Nix, D.A.3
Li, X.-Y.4
Bourgon, R.5
Biggin, M.6
Pirrotta, V.7
-
52
-
-
33745258986
-
Genome-wide profiling of PRC1 and PRC2 Polycomb chromatin binding in Drosophila melanogaster
-
DOI 10.1038/ng1792, PII N1792
-
Tolhuis, B., de Wit, E., Muijrers, I., Teunissen, H., Talhout, W., van Steensel, B. and van Lohuizen, M. (2006) Genome-wide profiling of PRC1 and PRC2 Polycomb chromatin binding in Drosophila melanogaster. Nat. Genet., 38, 694-699. (Pubitemid 43927313)
-
(2006)
Nature Genetics
, vol.38
, Issue.6
, pp. 694-699
-
-
Tolhuis, B.1
Muijrers, I.2
De Wit, E.3
Teunissen, H.4
Talhout, W.5
Van Steensel, B.6
Van Lohuizen, M.7
-
53
-
-
48949118753
-
RNA polymerase II stalling: Loading at the start prepares genes for a sprint
-
Wu, J.Q. and Snyder, M. (2008) RNA polymerase II stalling: loading at the start prepares genes for a sprint. Genome Biol., 9, 220.
-
(2008)
Genome Biol.
, vol.9
, pp. 220
-
-
Wu, J.Q.1
Snyder, M.2
-
54
-
-
70449641057
-
Progression through the RNA polymerase II CTD cycle
-
Buratowski, S. (2009) Progression through the RNA polymerase II CTD cycle. Mol. Cell, 36, 541-546.
-
(2009)
Mol. Cell
, vol.36
, pp. 541-546
-
-
Buratowski, S.1
-
55
-
-
45849129033
-
Promoter-proximal Pol II: When stalling speeds things up
-
Nechaev, S. and Adelman, K. (2008) Promoter-proximal Pol II: when stalling speeds things up. Cell Cycle, 7, 1539-1544. (Pubitemid 351881317)
-
(2008)
Cell Cycle
, vol.7
, Issue.11
, pp. 1539-1544
-
-
Nechaev, S.1
Adelman, K.2
-
56
-
-
41549134049
-
Poised Polymerases: On Your Mark...Get Set...Go!
-
DOI 10.1016/j.molcel.2008.03.001, PII S1097276508001561
-
Price, D.H. (2008) Poised polymerases: on your mark . . . get set . . . go! Mol. Cell, 30, 7-10. (Pubitemid 351470151)
-
(2008)
Molecular Cell
, vol.30
, Issue.1
, pp. 7-10
-
-
Price, D.H.1
-
57
-
-
41349094797
-
Transcription regulation through promoter-proximal pausing of RNA polymerase II
-
DOI 10.1126/science.1150843
-
Core, L.J. and Lis, J.T. (2008) Transcription regulation through promoter-proximal pausing of RNA polymerase II. Science, 319, 1791-1792. (Pubitemid 351451556)
-
(2008)
Science
, vol.319
, Issue.5871
, pp. 1791-1792
-
-
Core, L.J.1
Lis, J.T.2
-
58
-
-
74549132843
-
Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila
-
Nechaev, S., Fargo, D.C., dos Santos, G., Liu, L., Gao, Y. and Adelman, K. (2010) Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila. Science, 327, 335-338.
-
(2010)
Science
, vol.327
, pp. 335-338
-
-
Nechaev, S.1
Fargo, D.C.2
Dos Santos, G.3
Liu, L.4
Gao, Y.5
Adelman, K.6
-
59
-
-
33748314757
-
Breaking barriers to transcription elongation
-
DOI 10.1038/nrm1981, PII NRM1981
-
Saunders, A., Core, L.J. and Lis, J.T. (2006) Breaking barriers to transcription elongation. Nat. Rev. Mol. Cell Biol., 7, 557-567. (Pubitemid 44325347)
-
(2006)
Nature Reviews Molecular Cell Biology
, vol.7
, Issue.8
, pp. 557-567
-
-
Saunders, A.1
Core, L.J.2
Lis, J.T.3
-
60
-
-
43249086572
-
NELF and GAGA factor are linked to promoter-proximal pausing at many genes in Drosophila
-
DOI 10.1128/MCB.02224-07
-
Lee, C., Li, X., Hechmer, A., Eisen, M., Biggin, M.D., Venters, B.J., Jiang, C., Li, J., Pugh, B.F. and Gilmour, D.S. (2008) NELF and GAGA factor are linked to promoter-proximal pausing at many genes in Drosophila. Mol. Cell. Biol., 28, 3290-3300. (Pubitemid 351657093)
-
(2008)
Molecular and Cellular Biology
, vol.28
, Issue.10
, pp. 3290-3300
-
-
Lee, C.1
Li, X.2
Hechmer, A.3
Eisen, M.4
Biggin, M.D.5
Venters, B.J.6
Jiang, C.7
Li, J.8
Pugh, B.F.9
Gilmour, D.S.10
-
61
-
-
77951920690
-
C-Myc regulates transcriptional pause release
-
Rahl, P.B., Lin, C.Y., Seila, A.C., Flynn, R.A., McCuine, S., Burge, C.B., Sharp, P.A. and Young, R.A. (2010) c-Myc regulates transcriptional pause release. Cell, 141, 432-445.
-
(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
-
62
-
-
77954110394
-
Grasping trimethylation of histone H3 at lysine 4
-
Vermeulen, M. and Timmers, H.T. (2010) Grasping trimethylation of histone H3 at lysine 4. Epigenomics, 2, 395-406.
-
(2010)
Epigenomics
, vol.2
, pp. 395-406
-
-
Vermeulen, M.1
Timmers, H.T.2
-
63
-
-
36249027156
-
Recognition of Trimethylated Histone H3 Lysine 4 Facilitates the Recruitment of Transcription Postinitiation Factors and Pre-mRNA Splicing
-
DOI 10.1016/j.molcel.2007.11.010, PII S1097276507007447
-
Sims, R.J. 3rd, Millhouse, S., Chen, C.F., Lewis, B.A., Erdjument-Bromage, H., Tempst, P., Manley, J.L. and Reinberg, D. (2007) Recognition of trimethylated histone H3 lysine 4 facilitates the recruitment of transcription postinitiation factors and pre-mRNA splicing. Mol. Cell, 28, 665-676. (Pubitemid 350137805)
-
(2007)
Molecular Cell
, vol.28
, Issue.4
, pp. 665-676
-
-
Sims III, R.J.1
Millhouse, S.2
Chen, C.-F.3
Lewis, B.A.4
Erdjument-Bromage, H.5
Tempst, P.6
Manley, J.L.7
Reinberg, D.8
-
64
-
-
76949094155
-
Developmental gene regulation in the era of genomics
-
Zeitlinger, J. and Stark, A. (2010) Developmental gene regulation in the era of genomics. Dev. Biol., 339, 230-239.
-
(2010)
Dev. Biol.
, vol.339
, pp. 230-239
-
-
Zeitlinger, J.1
Stark, A.2
-
65
-
-
77951956458
-
Pol II and its associated epigenetic marks are present at Pol III-transcribed noncoding RNA genes
-
Barski, A., Chepelev, I., Liko, D., Cuddapah, S., Fleming, A.B., Birch, J., Cui, K., White, R.J. and Zhao, K. (2010) Pol II and its associated epigenetic marks are present at Pol III-transcribed noncoding RNA genes. Nat. Struct. Mol. Biol., 17, 629-634.
-
(2010)
Nat. Struct. Mol. Biol.
, vol.17
, pp. 629-634
-
-
Barski, A.1
Chepelev, I.2
Liko, D.3
Cuddapah, S.4
Fleming, A.B.5
Birch, J.6
Cui, K.7
White, R.J.8
Zhao, K.9
-
66
-
-
77951943463
-
Human RNA polymerase III transcriptomes and relationships to Pol II promoter chromatin and enhancer-binding factors
-
Oler, A.J., Alla, R.K., Roberts, D.N., Wong, A., Hollenhorst, P.C., Chandler, K.J., Cassiday, P.A., Nelson, C.A., Hagedorn, C.H., Graves, B.J. et al. (2010) Human RNA polymerase III transcriptomes and relationships to Pol II promoter chromatin and enhancer-binding factors. Nat. Struct. Mol. Biol., 17, 620-628.
-
(2010)
Nat. Struct. Mol. Biol.
, vol.17
, pp. 620-628
-
-
Oler, A.J.1
Alla, R.K.2
Roberts, D.N.3
Wong, A.4
Hollenhorst, P.C.5
Chandler, K.J.6
Cassiday, P.A.7
Nelson, C.A.8
Hagedorn, C.H.9
Graves, B.J.10
-
67
-
-
77649268269
-
Close association of RNA polymerase II and many transcription factors with Pol III genes
-
Raha, D., Wang, Z., Moqtaderi, Z., Wu, L., Zhong, G., Gerstein, M., Struhl, K. and Snyder, M. (2010) Close association of RNA polymerase II and many transcription factors with Pol III genes. Proc. Natl. Acad. Sci. USA, 107, 3639-3644.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 3639-3644
-
-
Raha, D.1
Wang, Z.2
Moqtaderi, Z.3
Wu, L.4
Zhong, G.5
Gerstein, M.6
Struhl, K.7
Snyder, M.8
-
68
-
-
50449096026
-
Max-independent functions of Myc in Drosophila melanogaster
-
Steiger, D., Furrer, M., Schwinkendorf, D. and Gallant, P. (2008) Max-independent functions of Myc in Drosophila melanogaster. Nat. Genet., 40, 1084-1091.
-
(2008)
Nat. Genet.
, vol.40
, pp. 1084-1091
-
-
Steiger, D.1
Furrer, M.2
Schwinkendorf, D.3
Gallant, P.4
|