-
1
-
-
33644971546
-
-
London, UK: Taylor and Francis
-
Latchman D Gene Regulation London, UK: Taylor and Francis 2005.
-
(2005)
Gene Regulation
-
-
Latchman, D.1
-
3
-
-
68049110237
-
Models for complex eukaryotic regulatory DNA sequences
-
London, UK: Imperial College Press Bajic VB, Tan TW
-
Ohler U Frith M Models for complex eukaryotic regulatory DNA sequences. Information Processing and Living Systems London, UK: Imperial College Press Bajic VB, Tan TW 2005, 575-610.
-
(2005)
Information Processing and Living Systems
, pp. 575-610
-
-
Ohler, U.1
Frith, M.2
-
4
-
-
0043269205
-
The RNA polymerase II core promoter
-
10.1146/annurev.biochem.72.121801.161520 12651739
-
Smale ST Kadonaga JT The RNA polymerase II core promoter. Annu Rev Biochem 2003, 72:449-479. 10.1146/annurev.biochem.72.121801.161520 12651739
-
(2003)
Annu Rev Biochem
, vol.72
, pp. 449-479
-
-
Smale, S.T.1
Kadonaga, J.T.2
-
5
-
-
24644519490
-
The transcriptional landscape of the mammalian genome
-
10.1126/science.1112014 16141072
-
Carninci P Kasukawa T Katayama S Gough J Frith MC Maeda N Oyama R Ravasi T Lenhard B Wells C Kodzius R Shimokawa K Bajic VB Brenner SE Batalov S Forrest AR Zavolan M Davis MJ Wilming LG Aidinis V Allen JE Ambesi-Impiombato A Apweiler R Aturaliya RN Bailey TL Bansal M Baxter L Beisel KW Bersano T Bono H et al The transcriptional landscape of the mammalian genome. Science 2005, 309:1559-1563. 10.1126/science.1112014 16141072
-
(2005)
Science
, vol.309
, pp. 1559-1563
-
-
Carninci, P.1
Kasukawa, T.2
Katayama, S.3
Gough, J.4
Frith, M.C.5
Maeda, N.6
Oyama, R.7
Ravasi, T.8
Lenhard, B.9
Wells, C.10
Kodzius, R.11
Shimokawa, K.12
Bajic, V.B.13
Brenner, S.E.14
Batalov, S.15
Forrest, A.R.16
Zavolan, M.17
Davis, M.J.18
Wilming, L.G.19
Aidinis, V.20
Allen, J.E.21
Ambesi-Impiombato, A.22
Apweiler, R.23
Aturaliya, R.N.24
Bailey, T.L.25
Bansal, M.26
Baxter, L.27
Beisel, K.W.28
Bersano, T.29
Bono, H.30
more..
-
6
-
-
59949103704
-
Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE
-
2652207 10.1101/gr.084541.108
-
Valen E Pascarella G Chalk A Maeda N Kojima M Kawazu C Murata M Nishiyori H Lazarevic D Motti D Marstrand TT Tang MH Zhao X Krogh A Winther O Arakawa T Kawai J Wells C Daub C Harbers M Hayashizaki Y Gustincich S Sandelin A Carninci P Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE. Genome Res 2009, 19:255-265. 2652207 19074369 10.1101/gr.084541.108
-
(2009)
Genome Res
, vol.19
, pp. 255-265
-
-
Valen, E.1
Pascarella, G.2
Chalk, A.3
Maeda, N.4
Kojima, M.5
Kawazu, C.6
Murata, M.7
Nishiyori, H.8
Lazarevic, D.9
Motti, D.10
Marstrand, T.T.11
Tang, M.H.12
Zhao, X.13
Krogh, A.14
Winther, O.15
Arakawa, T.16
Kawai, J.17
Wells, C.18
Daub, C.19
Harbers, M.20
Hayashizaki, Y.21
Gustincich, S.22
Sandelin, A.23
Carninci, P.24
more..
-
7
-
-
30044442791
-
Diversification of transcriptional modulation: Large-scale identification and characterization of putative alternative promoters of human genes
-
1356129 16344560 10.1101/gr.4039406
-
Kimura K Wakamatsu A Suzuki Y Ota T Nishikawa T Yamashita R Yamamoto J Sekine M Tsuritani K Wakaguri H Ishii S Sugiyama T Saito K Isono Y Irie R Kushida N Yoneyama T Otsuka R Kanda K Yokoi T Kondo H Wagatsuma M Murakawa K Ishida S Ishibashi T Takahashi-Fujii A Tanase T Nagai K Kikuchi H Nakai K et al Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Genome Res 2006, 16:55-65. 1356129 16344560 10.1101/gr.4039406
-
(2006)
Genome Res
, vol.16
, pp. 55-65
-
-
Kimura, K.1
Wakamatsu, A.2
Suzuki, Y.3
Ota, T.4
Nishikawa, T.5
Yamashita, R.6
Yamamoto, J.7
Sekine, M.8
Tsuritani, K.9
Wakaguri, H.10
Ishii, S.11
Sugiyama, T.12
Saito, K.13
Isono, Y.14
Irie, R.15
Kushida, N.16
Yoneyama, T.17
Otsuka, R.18
Kanda, K.19
Yokoi, T.20
Kondo, H.21
Wagatsuma, M.22
Murakawa, K.23
Ishida, S.24
Ishibashi, T.25
Takahashi-Fujii, A.26
Tanase, T.27
Nagai, K.28
Kikuchi, H.29
Nakai, K.30
more..
-
8
-
-
33644873945
-
EPD in its twentieth year: Towards complete promoter coverage of selected model organisms
-
1347508 10.1093/nar/gkj146
-
Schmid CD Perier R Praz V Bucher P EPD in its twentieth year: Towards complete promoter coverage of selected model organisms. Nucleic Acids Res 2006, 34:D82-85. 1347508 16381980 10.1093/nar/gkj146
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Schmid, C.D.1
Perier, R.2
Praz, V.3
Bucher, P.4
-
9
-
-
0031588566
-
High efficiency selection of full-length cDNA by improved biotinylated cap trapper
-
10.1093/dnares/4.1.61 9179497
-
Carninci P Westover A Nishiyama Y Ohsumi T Itoh M Nagaoka S Sasaki N Okazaki Y Muramatsu M Schneider C Hayashizaki Y High efficiency selection of full-length cDNA by improved biotinylated cap trapper. DNA Res 1997, 4:61-66. 10.1093/dnares/4.1.61 9179497
-
(1997)
DNA Res
, vol.4
, pp. 61-66
-
-
Carninci, P.1
Westover, A.2
Nishiyama, Y.3
Ohsumi, T.4
Itoh, M.5
Nagaoka, S.6
Sasaki, N.7
Okazaki, Y.8
Muramatsu, M.9
Schneider, C.10
Hayashizaki, Y.11
-
10
-
-
20144384163
-
Mapping of transcription start sites in Saccharomyces cerevisiae using 5′ SAGE
-
1131933 10.1093/nar/gki583
-
Zhang Z Dietrich FS Mapping of transcription start sites in Saccharomyces cerevisiae using 5′ SAGE. Nucleic Acids Res 2005, 33:2838-2851. 1131933 15905473 10.1093/nar/gki583
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 2838-2851
-
-
Zhang, Z.1
Dietrich, F.S.2
-
11
-
-
34249063835
-
Dynamic usage of transcription start sites within core promoters
-
1794431 10.1186/gb-2006-7-12-r118
-
Kawaji H Frith MC Katayama S Sandelin A Kai C Kawai J Carninci P Hayashizaki Y Dynamic usage of transcription start sites within core promoters. Genome Biol 2006, 7:R118. 1794431 17156492 10.1186/ gb-2006-7-12-r118
-
(2006)
Genome Biol
, vol.7
-
-
Kawaji, H.1
Frith, M.C.2
Katayama, S.3
Sandelin, A.4
Kai, C.5
Kawai, J.6
Carninci, P.7
Hayashizaki, Y.8
-
12
-
-
33744805985
-
Genome-wide analysis of mammalian promoter architecture and evolution
-
10.1038/ng1789 16645617
-
Carninci P Sandelin A Lenhard B Katayama S Shimokawa K Ponjavic J Semple CA Taylor MS Engstrom PG Frith MC Forrest AR Alkema WB Tan SL Plessy C Kodzius R Ravasi T Kasukawa T Fukuda S Kanamori-Katayama M Kitazume Y Kawaji H Kai C Nakamura M Konno H Nakano K Mottagui-Tabar S Arner P Chesi A Gustincich S Persichetti F et al Genome-wide analysis of mammalian promoter architecture and evolution. Nat Genet 2006, 38:626-635. 10.1038/ng1789 16645617
-
(2006)
Nat Genet
, vol.38
, pp. 626-635
-
-
Carninci, P.1
Sandelin, A.2
Lenhard, B.3
Katayama, S.4
Shimokawa, K.5
Ponjavic, J.6
Semple, C.A.7
Taylor, M.S.8
Engstrom, P.G.9
Frith, M.C.10
Forrest, A.R.11
Alkema, W.B.12
Tan, S.L.13
Plessy, C.14
Kodzius, R.15
Ravasi, T.16
Kasukawa, T.17
Fukuda, S.18
Kanamori-Katayama, M.19
Kitazume, Y.20
Kawaji, H.21
Kai, C.22
Nakamura, M.23
Konno, H.24
Nakano, K.25
Mottagui-Tabar, S.26
Arner, P.27
Chesi, A.28
Gustincich, S.29
Persichetti, F.30
more..
-
13
-
-
33749128065
-
Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters
-
1779604 10.1186/gb-2006-7-8-r78
-
Ponjavic J Lenhard B Kai C Kawai J Carninci P Hayashizaki Y Sandelin A Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters. Genome Biol 2006, 7:R78. 1779604 16916456 10.1186/gb-2006-7-8-r78
-
(2006)
Genome Biol
, vol.7
-
-
Ponjavic, J.1
Lenhard, B.2
Kai, C.3
Kawai, J.4
Carninci, P.5
Hayashizaki, Y.6
Sandelin, A.7
-
14
-
-
47149117454
-
Evolution of genes and genomes on the Drosophila phylogeny
-
10.1038/nature06341 17994087
-
Clark AG Eisen MB Smith DR Bergman CM Oliver B Markow TA Kaufman TC Kellis M Gelbart W Iyer VN Pollard DA Sackton TB Larracuente AM Singh ND Abad JP Abt DN Adryan B Aguade M Akashi H Anderson WW Aquadro CF Ardell DH Arguello R Artieri CG Barbash DA Barker D Barsanti P Batterham P Batzoglou S Begun D et al Evolution of genes and genomes on the Drosophila phylogeny. Nature 2007, 450:203-218. 10.1038/nature06341 17994087
-
(2007)
Nature
, vol.450
, 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
more..
-
15
-
-
36049018312
-
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
-
2474711 10.1038/nature06340
-
Stark A Lin MF Kheradpour P Pedersen JS Parts L Carlson JW Crosby MA Rasmussen MD Roy S Deoras AN Ruby JG Brennecke J Hodges E Hinrichs AS Caspi A Paten B Park SW Han MV Maeder ML Polansky BJ Robson BE Aerts S van Helden J Hassan B Gilbert DG Eastman DA Rice M Weir M Hahn MW Park Y et al Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature 2007, 450:219-232. 2474711 17994088 10.1038/nature06340
-
(2007)
Nature
, vol.450
, pp. 219-232
-
-
Stark, A.1
Lin, M.F.2
Kheradpour, P.3
Pedersen, J.S.4
Parts, L.5
Carlson, J.W.6
Crosby, M.A.7
Rasmussen, M.D.8
Roy, S.9
Deoras, A.N.10
Ruby, J.G.11
Brennecke, J.12
Hodges, E.13
Hinrichs, A.S.14
Caspi, A.15
Paten, B.16
Park, S.W.17
Han, M.V.18
Maeder, M.L.19
Polansky, B.J.20
Robson, B.E.21
Aerts, S.22
van Helden, J.23
Hassan, B.24
Gilbert, D.G.25
Eastman, D.A.26
Rice, M.27
Weir, M.28
Hahn, M.W.29
Park, Y.30
more..
-
16
-
-
0012340085
-
Finishing a whole-genome shotgun: Release 3 of the Drosophila melanogaster euchromatic genome sequence
-
RESEARCH0079 151181 12537568 10.1186/gb-2002-3-12-research0079
-
Celniker SE Wheeler DA Kronmiller B Carlson JW Halpern A Patel S Adams M Champe M Dugan SP Frise E Hodgson A George RA Hoskins RA Laverty T Muzny DM Nelson CR Pacleb JM Park S Pfeiffer BD Richards S Sodergren EJ Svirskas R Tabor PE Wan K Stapleton M Sutton GG Venter C Weinstock G Scherer SE Myers EW et al Finishing a whole-genome shotgun: Release 3 of the Drosophila melanogaster euchromatic genome sequence. Genome Biol 2002, 3. RESEARCH0079 151181 12537568 10.1186/gb-2002-3-12-research0079
-
(2002)
Genome Biol
, vol.3
-
-
Celniker, S.E.1
Wheeler, D.A.2
Kronmiller, B.3
Carlson, J.W.4
Halpern, A.5
Patel, S.6
Adams, M.7
Champe, M.8
Dugan, S.P.9
Frise, E.10
Hodgson, A.11
George, R.A.12
Hoskins, R.A.13
Laverty, T.14
Muzny, D.M.15
Nelson, C.R.16
Pacleb, J.M.17
Park, S.18
Pfeiffer, B.D.19
Richards, S.20
Sodergren, E.J.21
Svirskas, R.22
Tabor, P.E.23
Wan, K.24
Stapleton, M.25
Sutton, G.G.26
Venter, C.27
Weinstock, G.28
Scherer, S.E.29
Myers, E.W.30
more..
-
17
-
-
44649193565
-
The RNA polymerase II core promoter - The gateway to transcription
-
2586601 18436437 10.1016/j.ceb.2008.03.003
-
Juven-Gershon T Hsu JY Theisen JW Kadonaga JT The RNA polymerase II core promoter - the gateway to transcription. Curr Opin Cell Biol 2008, 20:253-259. 2586601 18436437 10.1016/j.ceb.2008.03.003
-
(2008)
Curr Opin Cell Biol
, vol.20
, pp. 253-259
-
-
Juven-Gershon, T.1
Hsu, J.Y.2
Theisen, J.W.3
Kadonaga, J.T.4
-
18
-
-
0012253746
-
Computational analysis of core promoters in the Drosophila genome
-
RESEARCH0087 151189 12537576 10.1186/gb-2002-3-12-research0087
-
Ohler U Liao GC Niemann H Rubin GM Computational analysis of core promoters in the Drosophila genome. Genome Biol 2002, 3. RESEARCH0087 151189 12537576 10.1186/gb-2002-3-12-research0087
-
(2002)
Genome Biol
, vol.3
-
-
Ohler, U.1
Liao, G.C.2
Niemann, H.3
Rubin, G.M.4
-
20
-
-
33845622415
-
Identification of core promoter modules in Drosophila and their application in accurate transcription start site prediction
-
1635271 10.1093/nar/gkl608
-
Ohler U Identification of core promoter modules in Drosophila and their application in accurate transcription start site prediction. Nucleic Acids Res 2006, 34:5943-5950. 1635271 17068082 10.1093/nar/gkl608
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 5943-5950
-
-
Ohler, U.1
-
21
-
-
38849112675
-
Genomic regulatory blocks underlie extensive microsynteny conservation in insects
-
2099597 10.1101/gr.6669607
-
Engstrom PG Ho Sui SJ Drivenes O Becker TS Lenhard B Genomic regulatory blocks underlie extensive microsynteny conservation in insects. Genome Res 2007, 17:1898-1908. 2099597 17989259 10.1101/gr.6669607
-
(2007)
Genome Res
, vol.17
, pp. 1898-1908
-
-
Engstrom, P.G.1
Ho Sui, S.J.2
Drivenes, O.3
Becker, T.S.4
Lenhard, B.5
-
22
-
-
36549013619
-
RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo
-
10.1038/ng.2007.26 17994019
-
Zeitlinger J Stark A Kellis M Hong JW Nechaev S Adelman K Levine M Young RA RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet 2007, 39:1512-1516. 10.1038/ ng.2007.26 17994019
-
(2007)
Nat Genet
, vol.39
, pp. 1512-1516
-
-
Zeitlinger, J.1
Stark, A.2
Kellis, M.3
Hong, J.W.4
Nechaev, S.5
Adelman, K.6
Levine, M.7
Young, R.A.8
-
23
-
-
43749099875
-
Nucleosome organization in the Drosophila genome
-
10.1038/nature06929 18408708
-
Mavrich TN Jiang C Ioshikhes IP Li X Venters BJ Zanton SJ Tomsho LP Qi J Glaser RL Schuster SC Gilmour DS Albert I Pugh BF Nucleosome organization in the Drosophila genome. Nature 2008, 453:358-362. 10.1038/ nature06929 18408708
-
(2008)
Nature
, vol.453
, pp. 358-362
-
-
Mavrich, T.N.1
Jiang, C.2
Ioshikhes, I.P.3
Li, X.4
Venters, B.J.5
Zanton, S.J.6
Tomsho, L.P.7
Qi, J.8
Glaser, R.L.9
Schuster, S.C.10
Gilmour, D.S.11
Albert, I.12
Pugh, B.F.13
-
24
-
-
27144510368
-
Genome-scale profiling of histone H3.3 replacement patterns
-
10.1038/ng1637 16155569
-
Mito Y Henikoff JG Henikoff S Genome-scale profiling of histone H3.3 replacement patterns. Nat Genet 2005, 37:1090-1097. 10.1038/ng1637 16155569
-
(2005)
Nat Genet
, vol.37
, pp. 1090-1097
-
-
Mito, Y.1
Henikoff, J.G.2
Henikoff, S.3
-
25
-
-
36249011467
-
Transcription of histone gene cluster by differential core-promoter factors
-
2049195 10.1101/gad.1608807
-
Isogai Y Keles S Prestel M Hochheimer A Tjian R Transcription of histone gene cluster by differential core-promoter factors. Genes Dev 2007, 21:2936-2949. 2049195 17978101 10.1101/gad.1608807
-
(2007)
Genes Dev
, vol.21
, pp. 2936-2949
-
-
Isogai, Y.1
Keles, S.2
Prestel, M.3
Hochheimer, A.4
Tjian, R.5
-
26
-
-
41149149041
-
The functional consequences of alternative promoter use in mammalian genomes
-
10.1016/j.tig.2008.01.008 18329129
-
Davuluri RV Suzuki Y Sugano S Plass C Huang TH The functional consequences of alternative promoter use in mammalian genomes. Trends Genet 2008, 24:167-177. 10.1016/j.tig.2008.01.008 18329129
-
(2008)
Trends Genet
, vol.24
, pp. 167-177
-
-
Davuluri, R.V.1
Suzuki, Y.2
Sugano, S.3
Plass, C.4
Huang, T.H.5
-
27
-
-
0028352158
-
A small region surrounding the distal promoter of the hunchback gene directs maternal expression
-
10.1006/dbio.1994.1156 10.1006/dbio.1994.1156 8200478
-
Margolis JS Borowsky M Shim CW Posakony JW A small region surrounding the distal promoter of the hunchback gene directs maternal expression. Dev Biol 1994, 163:381-388. 10.1006/dbio.1994.1156 8200478
-
(1994)
Dev Biol
, vol.163
, pp. 381-388
-
-
Margolis, J.S.1
Borowsky, M.2
Shim, C.W.3
Posakony, J.W.4
-
29
-
-
0024828407
-
The role of specific enhancer-promoter interactions in the Drosophila Adh promoter switch
-
10.1101/gad.3.12b.2191 2516829
-
Corbin V Maniatis T The role of specific enhancer-promoter interactions in the Drosophila Adh promoter switch. Genes Dev 1989, 3:2191-2120. 10.1101/gad.3.12b.2191 2516829
-
(1989)
Genes Dev
, vol.3
, pp. 2120-2191
-
-
Corbin, V.1
Maniatis, T.2
-
30
-
-
0035976787
-
Regulated assembly of transcription factors and control of transcription initiation
-
10.1006/jmbi.2001.5134 11846548
-
Beckett D Regulated assembly of transcription factors and control of transcription initiation. J Mol Biol 2001, 314:335-352. 10.1006/ jmbi.2001.5134 11846548
-
(2001)
J Mol Biol
, vol.314
, pp. 335-352
-
-
Beckett, D.1
-
31
-
-
4344595718
-
Combinatorial control of gene expression
-
10.1038/nsmb820 15332082
-
Remenyi A Scholer HR Wilmanns M Combinatorial control of gene expression. Nat Struct Mol Biol 2004, 11:812-815. 10.1038/nsmb820 15332082
-
(2004)
Nat Struct Mol Biol
, vol.11
, pp. 812-815
-
-
Remenyi, A.1
Scholer, H.R.2
Wilmanns, M.3
-
32
-
-
34249804498
-
Using FlyAtlas to identify better Drosophila melanogaster models of human disease
-
10.1038/ng2049 17534367
-
Chintapalli VR Wang J Dow JA Using FlyAtlas to identify better Drosophila melanogaster models of human disease. Nat Genet 2007, 39:715-720. 10.1038/ng2049 17534367
-
(2007)
Nat Genet
, vol.39
, pp. 715-720
-
-
Chintapalli, V.R.1
Wang, J.2
Dow, J.A.3
-
33
-
-
0003328368
-
Evidence for large domains of similarly expressed genes in the Drosophila genome
-
117248 117248 12144710 10.1186/1475-4924-1-5
-
Spellman PT Rubin GM Evidence for large domains of similarly expressed genes in the Drosophila genome. J Biol 2002, 1:5. 117248 12144710 10.1186/1475-4924-1-5
-
(2002)
J Biol
, vol.1
, pp. 5
-
-
Spellman, P.T.1
Rubin, G.M.2
-
34
-
-
34548427818
-
Switching of the core transcription machinery during myogenesis
-
1950853 17704303 10.1101/gad.1583407
-
Deato MD Tjian R Switching of the core transcription machinery during myogenesis. Genes Dev 2007, 21:2137-2149. 1950853 17704303 10.1101/ gad.1583407
-
(2007)
Genes Dev
, vol.21
, pp. 2137-2149
-
-
Deato, M.D.1
Tjian, R.2
-
35
-
-
33749580447
-
DNA binding properties of TAF1 isoforms with two AT-hooks
-
10.1074/jbc.M606289200 16893881
-
Metcalf CE Wassarman DA DNA binding properties of TAF1 isoforms with two AT-hooks. J Biol Chem 2006, 281:30015-30023. 10.1074/jbc.M606289200 16893881
-
(2006)
J Biol Chem
, vol.281
, pp. 30015-30023
-
-
Metcalf, C.E.1
Wassarman, D.A.2
-
36
-
-
38549102535
-
FlyBase: Integration and improvements to query tools
-
(Database) 2238994 18160408
-
Wilson RJ Goodman JL Strelets VB FlyBase Consortium FlyBase: Integration and improvements to query tools. Nucleic Acids Res 2008, 36(Database):D588-593. 2238994 18160408
-
(2008)
Nucleic Acids Res
-
-
Wilson, R.J.1
Goodman, J.L.2
Strelets, V.B.3
-
37
-
-
38549094621
-
DBTSS: Database of transcription start sites, progress report 2008
-
2238895 10.1093/nar/gkm901
-
Wakaguri H Yamashita R Suzuki Y Sugano S Nakai K DBTSS: Database of transcription start sites, progress report 2008. Nucleic Acids Res 2008, 36:D97-101. 2238895 17942421 10.1093/nar/gkm901
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Wakaguri, H.1
Yamashita, R.2
Suzuki, Y.3
Sugano, S.4
Nakai, K.5
-
38
-
-
0348062819
-
The Eukaryotic Promoter Database EPD: The impact of in silico primer extension
-
308856 10.1093/nar/gkh122
-
Schmid CD Praz V Delorenzi M Perier R Bucher P The Eukaryotic Promoter Database EPD: The impact of in silico primer extension. Nucleic Acids Res 2004, 32:D82-85. 308856 14681364 10.1093/nar/gkh122
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Schmid, C.D.1
Praz, V.2
Delorenzi, M.3
Perier, R.4
Bucher, P.5
-
39
-
-
0012306020
-
A Drosophila full-length cDNA resource
-
RESEARCH0080 151182 12537569 10.1186/gb-2002-3-12-research0080
-
Stapleton M Carlson J Brokstein P Yu C Champe M George R Guarin H Kronmiller B Pacleb J Park S Wan K Rubin GM Celniker SE A Drosophila full-length cDNA resource. Genome Biol 2002, 3. RESEARCH0080 151182 12537569 10.1186/gb-2002-3-12-research0080
-
(2002)
Genome Biol
, vol.3
-
-
Stapleton, M.1
Carlson, J.2
Brokstein, P.3
Yu, C.4
Champe, M.5
George, R.6
Guarin, H.7
Kronmiller, B.8
Pacleb, J.9
Park, S.10
Wan, K.11
Rubin, G.M.12
Celniker, S.E.13
-
40
-
-
33749153857
-
Biological function of unannotated transcription during the early development of Drosophila melanogaster
-
10.1038/ng1875 16951679
-
Manak JR Dike S Sementchenko V Kapranov P Biemar F Long J Cheng J Bell I Ghosh S Piccolboni A Gingeras TR Biological function of unannotated transcription during the early development of Drosophila melanogaster. Nat Genet 2006, 38:1151-1158. 10.1038/ng1875 16951679
-
(2006)
Nat Genet
, vol.38
, pp. 1151-1158
-
-
Manak, J.R.1
Dike, S.2
Sementchenko, V.3
Kapranov, P.4
Biemar, F.5
Long, J.6
Cheng, J.7
Bell, I.8
Ghosh, S.9
Piccolboni, A.10
Gingeras, T.R.11
-
41
-
-
4944260940
-
The regulatory content of intergenic DNA shapes genome architecture
-
395784 10.1186/gb-2004-5-4-r25
-
Nelson CE Hersh BM Carroll SB The regulatory content of intergenic DNA shapes genome architecture. Genome Biol 2004, 5:R25. 395784 15059258 10.1186/gb-2004-5-4-r25
-
(2004)
Genome Biol
, vol.5
-
-
Nelson, C.E.1
Hersh, B.M.2
Carroll, S.B.3
-
42
-
-
0023055375
-
Compilation and analysis of eukaryotic POL II promoter sequences
-
341352 10.1093/nar/14.24.10009
-
Bucher P Trifonov EN Compilation and analysis of eukaryotic POL II promoter sequences. Nucleic Acids Res 1986, 14:10009-10026. 341352 3808945 10.1093/nar/14.24.10009
-
(1986)
Nucleic Acids Res
, vol.14
, pp. 10009-10026
-
-
Bucher, P.1
Trifonov, E.N.2
-
43
-
-
33750345805
-
Rational design of a super core promoter that enhances gene expression
-
10.1038/nmeth937 17124735
-
Juven-Gershon T Cheng S Kadonaga JT Rational design of a super core promoter that enhances gene expression. Nat Methods 2006, 3:917-922. 10.1038/nmeth937 17124735
-
(2006)
Nat Methods
, vol.3
, pp. 917-922
-
-
Juven-Gershon, T.1
Cheng, S.2
Kadonaga, J.T.3
-
44
-
-
0037191755
-
TRF2 associates with DREF and directs promoter-selective gene expression in Drosophila
-
10.1038/nature01167 12459787
-
Hochheimer A Zhou S Zheng S Holmes MC Tjian R TRF2 associates with DREF and directs promoter-selective gene expression in Drosophila. Nature 2002, 420:439-445. 10.1038/nature01167 12459787
-
(2002)
Nature
, vol.420
, pp. 439-445
-
-
Hochheimer, A.1
Zhou, S.2
Zheng, S.3
Holmes, M.C.4
Tjian, R.5
-
45
-
-
33744824906
-
Evolutionary turnover of mammalian transcription start sites
-
1473182 16687732 10.1101/gr.5031006
-
Frith MC Ponjavic J Fredman D Kai C Kawai J Carninci P Hayashizaki Y Sandelin A Evolutionary turnover of mammalian transcription start sites. Genome Res 2006, 16:713-722. 1473182 16687732 10.1101/gr.5031006
-
(2006)
Genome Res
, vol.16
, pp. 713-722
-
-
Frith, M.C.1
Ponjavic, J.2
Fredman, D.3
Kai, C.4
Kawai, J.5
Carninci, P.6
Hayashizaki, Y.7
Sandelin, A.8
-
46
-
-
36148993949
-
Tramtrack regulates different morphogenetic events during Drosophila tracheal development
-
10.1242/dev.007328 17881489
-
Araujo SJ Cela C Llimargas M Tramtrack regulates different morphogenetic events during Drosophila tracheal development. Development 2007, 134:3665-3676. 10.1242/dev.007328 17881489
-
(2007)
Development
, vol.134
, pp. 3665-3676
-
-
Araujo, S.J.1
Cela, C.2
Llimargas, M.3
-
47
-
-
1342306707
-
Asymmetric localization and function of cell-fate determinants: A fly's view
-
10.1016/j.conb.2003.12.002 15018932
-
Bardin A Le Borgne R Schweisguth F Asymmetric localization and function of cell-fate determinants: A fly's view. Curr Opin Neurobiol 2004, 14:6-14. 10.1016/j.conb.2003.12.002 15018932
-
(2004)
Curr Opin Neurobiol
, vol.14
, pp. 6-14
-
-
Bardin, A.1
Le Borgne, R.2
Schweisguth, F.3
-
48
-
-
0012252471
-
Systematic determination of patterns of gene expression during Drosophila embryogenesis
-
RESEARCH0088 151190 12537577 10.1186/gb-2002-3-12-research0088
-
Tomancak P Beaton A Weiszmann R Kwan E Shu S Lewis SE Richards S Ashburner M Hartenstein V Celniker SE Rubin GM Systematic determination of patterns of gene expression during Drosophila embryogenesis. Genome Biol 2002, 3. RESEARCH0088 151190 12537577 10.1186/ gb-2002-3-12-research0088
-
(2002)
Genome Biol
, vol.3
-
-
Tomancak, P.1
Beaton, A.2
Weiszmann, R.3
Kwan, E.4
Shu, S.5
Lewis, S.E.6
Richards, S.7
Ashburner, M.8
Hartenstein, V.9
Celniker, S.E.10
Rubin, G.M.11
-
49
-
-
33846510838
-
Large-scale discovery of promoter motifs in Drosophila melanogaster
-
1779301 10.1371/journal.pcbi.0030007
-
Down TA Bergman CM Su J Hubbard TJ Large-scale discovery of promoter motifs in Drosophila melanogaster. PLoS Comput Biol 2007, 3:e7. 1779301 17238282 10.1371/journal.pcbi.0030007
-
(2007)
PLoS Comput Biol
, vol.3
-
-
Down, T.A.1
Bergman, C.M.2
Su, J.3
Hubbard, T.J.4
-
50
-
-
33845742990
-
Enhancer-promoter communication at the yellow gene of Drosophila melanogaster: Diverse promoters participate in and regulate trans interactions
-
1698615 17057235 10.1534/genetics.106.064121
-
Lee AM Wu CT Enhancer-promoter communication at the yellow gene of Drosophila melanogaster: Diverse promoters participate in and regulate trans interactions. Genetics 2006, 174:1867-1880. 1698615 17057235 10.1534/genetics.106.064121
-
(2006)
Genetics
, vol.174
, pp. 1867-1880
-
-
Lee, A.M.1
Wu, C.T.2
-
51
-
-
38349127974
-
Global analysis of patterns of gene expression during Drosophila embryogenesis
-
2323238 10.1186/gb-2007-8-7-r145
-
Tomancak P Berman BP Beaton A Weiszmann R Kwan E Hartenstein V Celniker SE Rubin GM Global analysis of patterns of gene expression during Drosophila embryogenesis. Genome Biol 2007, 8:R145. 2323238 17645804 10.1186/gb-2007-8-7-r145
-
(2007)
Genome Biol
, vol.8
-
-
Tomancak, P.1
Berman, B.P.2
Beaton, A.3
Weiszmann, R.4
Kwan, E.5
Hartenstein, V.6
Celniker, S.E.7
Rubin, G.M.8
-
52
-
-
35349001679
-
Nucleolar colocalization of TAF1 and testis-specific TAFs during Drosophila spermatogenesis
-
10.1002/dvdy.21294 17823958
-
Metcalf CE Wassarman DA Nucleolar colocalization of TAF1 and testis-specific TAFs during Drosophila spermatogenesis. Dev Dyn 2007, 236:2836-2843. 10.1002/dvdy.21294 17823958
-
(2007)
Dev Dyn
, vol.236
, pp. 2836-2843
-
-
Metcalf, C.E.1
Wassarman, D.A.2
-
53
-
-
60549083701
-
Complex organizational structure of the genome revealed by genome-wide analysis of single and alternative promoters in Drosophila melanogaster
-
2631479 19128496 10.1186/1471-2164-10-9
-
Zhu Q Halfon MS Complex organizational structure of the genome revealed by genome-wide analysis of single and alternative promoters in Drosophila melanogaster. BMC Genomics 2009, 10:9. 2631479 19128496 10.1186/1471-2164-10-9
-
(2009)
BMC Genomics
, vol.10
, pp. 9
-
-
Zhu, Q.1
Halfon, M.S.2
-
54
-
-
51149085210
-
TBP, Mot1, and NC2 establish a regulatory circuit that controls DPE-dependent versus TATA-dependent transcription
-
2532932 10.1101/gad.1681808
-
Hsu JY Juven-Gershon T Marr MT 2nd Wright KJ Tjian R Kadonaga JT TBP, Mot1, and NC2 establish a regulatory circuit that controls DPE-dependent versus TATA-dependent transcription. Genes Dev 2008, 22:2353-2358. 2532932 18703680 10.1101/gad.1681808
-
(2008)
Genes Dev
, vol.22
, pp. 2353-2358
-
-
Hsu, J.Y.1
Juven-Gershon, T.2
Marr II, M.T.3
Wright, K.J.4
Tjian, R.5
Kadonaga, J.T.6
-
56
-
-
0037079014
-
The structure of the protein universe and genome evolution
-
10.1038/nature01256 12432406
-
Koonin EV Wolf YI Karev GP The structure of the protein universe and genome evolution. Nature 2002, 420:218-223. 10.1038/nature01256 12432406
-
(2002)
Nature
, vol.420
, pp. 218-223
-
-
Koonin, E.V.1
Wolf, Y.I.2
Karev, G.P.3
-
57
-
-
27144506577
-
Functional characterization of core promoter elements: The downstream core element is recognized by TAF1
-
1265815 10.1128/MCB.25.21.9674-9686.2005
-
Lee DH Gershenzon N Gupta M Ioshikhes IP Reinberg D Lewis BA Functional characterization of core promoter elements: The downstream core element is recognized by TAF1. Mol Cell Biol 2005, 25:9674-9686. 1265815 16227614 10.1128/MCB.25.21.9674-9686.2005
-
(2005)
Mol Cell Biol
, vol.25
, pp. 9674-9686
-
-
Lee, D.H.1
Gershenzon, N.2
Gupta, M.3
Ioshikhes, I.P.4
Reinberg, D.5
Lewis, B.A.6
-
59
-
-
33750486851
-
Functional CpG methylation system in a social insect
-
10.1126/science.1135213 17068262
-
Wang Y Jorda M Jones PL Maleszka R Ling X Robertson HM Mizzen CA Peinado MA Robinson GE Functional CpG methylation system in a social insect. Science 2006, 314:645-647. 10.1126/science.1135213 17068262
-
(2006)
Science
, vol.314
, pp. 645-647
-
-
Wang, Y.1
Jorda, M.2
Jones, P.L.3
Maleszka, R.4
Ling, X.5
Robertson, H.M.6
Mizzen, C.A.7
Peinado, M.A.8
Robinson, G.E.9
-
61
-
-
42949147755
-
Phylogenetic simulation of promoter evolution: Estimation and modeling of binding site turnover events and assessment of their impact on alignment tools
-
2246299 10.1186/gb-2007-8-10-r225
-
Huang W Nevins JR Ohler U Phylogenetic simulation of promoter evolution: estimation and modeling of binding site turnover events and assessment of their impact on alignment tools. Genome Biol 2007, 8:R225. 2246299 17956628 10.1186/gb-2007-8-10-r225
-
(2007)
Genome Biol
, vol.8
-
-
Huang, W.1
Nevins, J.R.2
Ohler, U.3
-
62
-
-
33750204634
-
Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments
-
1613255 16904011 10.1186/1471-2105-7-376
-
Pollard DA Moses AM Iyer VN Eisen MB Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments. BMC Bioinformatics 2006, 7:376. 1613255 16904011 10.1186/1471-2105-7-376
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 376
-
-
Pollard, D.A.1
Moses, A.M.2
Iyer, V.N.3
Eisen, M.B.4
-
63
-
-
34347384001
-
Distinct class of putative "non-conserved" promoters in humans: Comparative studies of alternative promoters of human and mouse genes
-
1899111 10.1101/gr.6030107
-
Tsuritani K Irie T Yamashita R Sakakibara Y Wakaguri H Kanai A Mizushima-Sugano J Sugano S Nakai K Suzuki Y Distinct class of putative "non-conserved" promoters in humans: Comparative studies of alternative promoters of human and mouse genes. Genome Res 2007, 17:1005-1014. 1899111 17567985 10.1101/gr.6030107
-
(2007)
Genome Res
, vol.17
, pp. 1005-1014
-
-
Tsuritani, K.1
Irie, T.2
Yamashita, R.3
Sakakibara, Y.4
Wakaguri, H.5
Kanai, A.6
Mizushima-Sugano, J.7
Sugano, S.8
Nakai, K.9
Suzuki, Y.10
-
64
-
-
44649135287
-
Fast evolution of core promoters in primate genomes
-
10.1093/molbev/msn072 18367463
-
Liang H Lin YS Li WH Fast evolution of core promoters in primate genomes. Mol Biol Evol 2008, 25:1239-1244. 10.1093/molbev/msn072 18367463
-
(2008)
Mol Biol Evol
, vol.25
, pp. 1239-1244
-
-
Liang, H.1
Lin, Y.S.2
Li, W.H.3
-
65
-
-
33646843937
-
Core promoter-selective RNA polymerase II transcription
-
16626302
-
Gross P Oelgeschlager T Core promoter-selective RNA polymerase II transcription. Biochem Soc Symp 2006, 225-236. 16626302
-
(2006)
Biochem Soc Symp
, pp. 225-236
-
-
Gross, P.1
Oelgeschlager, T.2
-
66
-
-
0035477093
-
Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs
-
312797 10.1101/gad.924301
-
Butler JE Kadonaga JT Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs. Genes Dev 2001, 15:2515-2519. 312797 11581157 10.1101/gad.924301
-
(2001)
Genes Dev
, vol.15
, pp. 2515-2519
-
-
Butler, J.E.1
Kadonaga, J.T.2
-
67
-
-
0032213217
-
GAGA mediates the enhancer blocking activity of the eve promoter in the Drosophila embryo
-
317233 10.1101/gad.12.21.3325
-
Ohtsuki S Levine M GAGA mediates the enhancer blocking activity of the eve promoter in the Drosophila embryo. Genes Dev 1998, 12:3325-3330. 317233 9808619 10.1101/gad.12.21.3325
-
(1998)
Genes Dev
, vol.12
, pp. 3325-3330
-
-
Ohtsuki, S.1
Levine, M.2
-
68
-
-
2942560254
-
Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene
-
10.1038/nature02538 15175754
-
Martens JA Laprade L Winston F Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene. Nature 2004, 429:571-574. 10.1038/nature02538 15175754
-
(2004)
Nature
, vol.429
, pp. 571-574
-
-
Martens, J.A.1
Laprade, L.2
Winston, F.3
-
69
-
-
9444236234
-
Testis-specific TAF homologs collaborate to control a tissue-specific transcription program
-
10.1242/dev.01314 15456720
-
Hiller M Chen X Pringle MJ Suchorolski M Sancak Y Viswanathan S Bolival B Lin TY Marino S Fuller MT Testis-specific TAF homologs collaborate to control a tissue-specific transcription program. Development 2004, 131:5297-5308. 10.1242/dev.01314 15456720
-
(2004)
Development
, vol.131
, pp. 5297-5308
-
-
Hiller, M.1
Chen, X.2
Pringle, M.J.3
Suchorolski, M.4
Sancak, Y.5
Viswanathan, S.6
Bolival, B.7
Lin, T.Y.8
Marino, S.9
Fuller, M.T.10
-
70
-
-
7044249198
-
Internal ribosome entry site drives cap-independent translation of reaper and heat shock protein 70 mRNAs in Drosophila embryos
-
1370666 15496524 10.1261/rna.7154104
-
Hernandez G Vazquez-Pianzola P Sierra JM Rivera-Pomar R Internal ribosome entry site drives cap-independent translation of reaper and heat shock protein 70 mRNAs in Drosophila embryos. RNA 2004, 10:1783-1797. 1370666 15496524 10.1261/rna.7154104
-
(2004)
RNA
, vol.10
, pp. 1783-1797
-
-
Hernandez, G.1
Vazquez-Pianzola, P.2
Sierra, J.M.3
Rivera-Pomar, R.4
-
71
-
-
33846248288
-
Different modes of translation for hid, grim and sickle mRNAs in Drosophila
-
10.1038/sj.cdd.4401990 16794603
-
Vazquez-Pianzola P Hernandez G Suter B Rivera-Pomar R Different modes of translation for hid, grim and sickle mRNAs in Drosophila. Cell Death Differ 2007, 14:286-295. 10.1038/sj.cdd.4401990 16794603
-
(2007)
Cell Death Differ
, vol.14
, pp. 286-295
-
-
Vazquez-Pianzola, P.1
Hernandez, G.2
Suter, B.3
Rivera-Pomar, R.4
-
72
-
-
58149179990
-
MachiBase: A Drosophila melanogaster 5'-end mRNA transcription database
-
2686457 18842623 10.1093/nar/gkn694
-
Ahsan B Saito TL Hashimoto S Muramatsu K Tsuda M Sasaki A Matsushima K Aigaki T Morishita S MachiBase: A Drosophila melanogaster 5'-end mRNA transcription database. Nucleic Acids Res 2009, 37:D49-53. 2686457 18842623 10.1093/nar/gkn694
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Ahsan, B.1
Saito, T.L.2
Hashimoto, S.3
Muramatsu, K.4
Tsuda, M.5
Sasaki, A.6
Matsushima, K.7
Aigaki, T.8
Morishita, S.9
-
73
-
-
0032826179
-
Identifying DNA and protein patterns with statistically significant alignments of multiple sequences
-
10.1093/bioinformatics/15.7.563 10487864
-
Hertz GZ Stormo GD Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics 1999, 15:563-577. 10.1093/bioinformatics/15.7.563 10487864
-
(1999)
Bioinformatics
, vol.15
, pp. 563-577
-
-
Hertz, G.Z.1
Stormo, G.D.2
-
74
-
-
0037398368
-
LAGAN and Multi-LAGAN: Efficient tools for large-scale multiple alignment of genomic DNA
-
430158 12654723 10.1101/gr.926603
-
Brudno M Do CB Cooper GM Kim MF Davydov E Green ED Sidow A Batzoglou S LAGAN and Multi-LAGAN: Efficient tools for large-scale multiple alignment of genomic DNA. Genome Res 2003, 13:721-731. 430158 12654723 10.1101/gr.926603
-
(2003)
Genome Res
, vol.13
, pp. 721-731
-
-
Brudno, M.1
Do, C.B.2
Cooper, G.M.3
Kim, M.F.4
Davydov, E.5
Green, E.D.6
Sidow, A.7
Batzoglou, S.8
-
77
-
-
27644556090
-
Identification and characterization of upstream open reading frames (uORF) in the 5′ untranslated regions (UTR) of genes in Saccharomyces cerevisiae
-
10.1007/s00294-005-0001-x 16012843
-
Zhang Z Dietrich FS Identification and characterization of upstream open reading frames (uORF) in the 5′ untranslated regions (UTR) of genes in Saccharomyces cerevisiae. Curr Genet 2005, 48:77-87. 10.1007/ s00294-005-0001-x 16012843
-
(2005)
Curr Genet
, vol.48
, pp. 77-87
-
-
Zhang, Z.1
Dietrich, F.S.2
-
78
-
-
34547608286
-
MADAP, a flexible clustering tool for the interpretation of one-dimensional genome annotation data
-
1933235 10.1093/nar/gkm343
-
Schmid CD Sengstag T Bucher P Delorenzi M MADAP, a flexible clustering tool for the interpretation of one-dimensional genome annotation data. Nucleic Acids Res 2007, 35:W201-205. 1933235 17526516 10.1093/nar/gkm343
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Schmid, C.D.1
Sengstag, T.2
Bucher, P.3
Delorenzi, M.4
-
80
-
-
33744549560
-
In vitro transcription amplification and labeling methods contribute to the variability of gene expression profiling with DNA microarrays
-
1867595 10.2353/jmoldx.2006.050077
-
Ma C Lyons-Weiler M Liang W LaFramboise W Gilbertson JR Becich MJ Monzon FA In vitro transcription amplification and labeling methods contribute to the variability of gene expression profiling with DNA microarrays. J Mol Diagn 2006, 8:183-192. 1867595 16645204 10.2353/jmoldx.2006.050077
-
(2006)
J Mol Diagn
, vol.8
, pp. 183-192
-
-
Ma, C.1
Lyons-Weiler, M.2
Liang, W.3
LaFramboise, W.4
Gilbertson, J.R.5
Becich, M.J.6
Monzon, F.A.7
-
81
-
-
33845609562
-
Cis-motifs upstream of the transcription and translation initiation sites are effectively revealed by their positional disequilibrium in eukaryote genomes using frequency distribution curves
-
1698937 17137509 10.1186/1471-2105-7-522
-
Berendzen KW Stuber K Harter K Wanke D Cis-motifs upstream of the transcription and translation initiation sites are effectively revealed by their positional disequilibrium in eukaryote genomes using frequency distribution curves. BMC Bioinformatics 2006, 7:522. 1698937 17137509 10.1186/1471-2105-7-522
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 522
-
-
Berendzen, K.W.1
Stuber, K.2
Harter, K.3
Wanke, D.4
-
82
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
-
10.1038/75556 10802651
-
Ashburner M Ball CA Blake JA Botstein D Butler H Cherry JM Davis AP Dolinski K Dwight SS Eppig JT Harris MA Hill DP Issel-Tarver L Kasarskis A Lewis S Matese JC Richardson JE Ringwald M Rubin GM Sherlock G Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 2000, 25:25-29. 10.1038/75556 10802651
-
(2000)
Nat Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
83
-
-
0028857136
-
Mathematical formulae for the prediction of the residual beta cell function during the first two years of disease in children and adolescents with insulin-dependent diabetes mellitus
-
10.1016/0306-9877(95)90228-7 8748093
-
Klipper-Aurbach Y Wasserman M Braunspiegel-Weintrob N Borstein D Peleg S Assa S Karp M Benjamini Y Hochberg Y Laron Z Mathematical formulae for the prediction of the residual beta cell function during the first two years of disease in children and adolescents with insulin-dependent diabetes mellitus. Med Hypotheses 1995, 45:486-490. 10.1016/ 0306-9877(95)90228-7 8748093
-
(1995)
Med Hypotheses
, vol.45
, pp. 486-490
-
-
Klipper-Aurbach, Y.1
Wasserman, M.2
Braunspiegel-Weintrob, N.3
Borstein, D.4
Peleg, S.5
Assa, S.6
Karp, M.7
Benjamini, Y.8
Hochberg, Y.9
Laron, Z.10
-
84
-
-
0242317345
-
Complex controls: The role of alternative promoters in mammalian genomes
-
10.1016/j.tig.2003.09.014 14585616
-
Landry JR Mager DL Wilhelm BT Complex controls: The role of alternative promoters in mammalian genomes. Trends Genet 2003, 19:640-648. 10.1016/ j.tig.2003.09.014 14585616
-
(2003)
Trends Genet
, vol.19
, pp. 640-648
-
-
Landry, J.R.1
Mager, D.L.2
Wilhelm, B.T.3
-
85
-
-
34247468830
-
The maternal-zygotic transition: Death and birth of RNAs
-
10.1126/science.1140693 17446392
-
Schier AF The maternal-zygotic transition: Death and birth of RNAs. Science 2007, 316:406-407. 10.1126/science.1140693 17446392
-
(2007)
Science
, vol.316
, pp. 406-407
-
-
Schier, A.F.1
-
86
-
-
34249092299
-
Unmasking activation of the zygotic genome using chromosomal deletions in the Drosophila embryo
-
1854917 10.1371/journal.pbio.0050117
-
De Renzis S Elemento O Tavazoie S Wieschaus EF Unmasking activation of the zygotic genome using chromosomal deletions in the Drosophila embryo. PLoS Biol 2007, 5:e117. 1854917 17456005 10.1371/journal.pbio.0050117
-
(2007)
PLoS Biol
, vol.5
-
-
De Renzis, S.1
Elemento, O.2
Tavazoie, S.3
Wieschaus, E.F.4
-
87
-
-
4444232272
-
Analysis of signal-dependent changes in the proteome of Drosophila blood cells during an immune response
-
10.1074/mcp.M400028-MCP200 15148344
-
Loseva O Engstrom Y Analysis of signal-dependent changes in the proteome of Drosophila blood cells during an immune response. Mol Cell Proteomics 2004, 3:796-808. 10.1074/mcp.M400028-MCP200 15148344
-
(2004)
Mol Cell Proteomics
, vol.3
, pp. 796-808
-
-
Loseva, O.1
Engstrom, Y.2
-
88
-
-
33745593021
-
Characterization of the Drosophila lipid droplet subproteome
-
10.1074/mcp.M600011-MCP200 16543254
-
Beller M Riedel D Jansch L Dieterich G Wehland J Jackle H Kuhnlein RP Characterization of the Drosophila lipid droplet subproteome. Mol Cell Proteomics 2006, 5:1082-1094. 10.1074/mcp.M600011-MCP200 16543254
-
(2006)
Mol Cell Proteomics
, vol.5
, pp. 1082-1094
-
-
Beller, M.1
Riedel, D.2
Jansch, L.3
Dieterich, G.4
Wehland, J.5
Jackle, H.6
Kuhnlein, R.P.7
-
89
-
-
22144467302
-
Issues in the analysis of oligonucleotide tiling microarrays for transcript mapping
-
1855044 15979196 10.1016/j.tig.2005.06.007
-
Royce TE Rozowsky JS Bertone P Samanta M Stolc V Weissman S Snyder M Gerstein M Issues in the analysis of oligonucleotide tiling microarrays for transcript mapping. Trends Genet 2005, 21:466-475. 1855044 15979196 10.1016/j.tig.2005.06.007
-
(2005)
Trends Genet
, vol.21
, pp. 466-475
-
-
Royce, T.E.1
Rozowsky, J.S.2
Bertone, P.3
Samanta, M.4
Stolc, V.5
Weissman, S.6
Snyder, M.7
Gerstein, M.8
-
90
-
-
12144287461
-
Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22
-
353210 14993201 10.1101/gr.2094104
-
Kampa D Cheng J Kapranov P Yamanaka M Brubaker S Cawley S Drenkow J Piccolboni A Bekiranov S Helt G Tammana H Gingeras TR Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22. Genome Res 2004, 14:331-342. 353210 14993201 10.1101/gr.2094104
-
(2004)
Genome Res
, vol.14
, pp. 331-342
-
-
Kampa, D.1
Cheng, J.2
Kapranov, P.3
Yamanaka, M.4
Brubaker, S.5
Cawley, S.6
Drenkow, J.7
Piccolboni, A.8
Bekiranov, S.9
Helt, G.10
Tammana, H.11
Gingeras, T.R.12
-
91
-
-
19944376457
-
Global identification of human transcribed sequences with genome tiling arrays
-
10.1126/science.1103388 15539566
-
Bertone P Stolc V Royce TE Rozowsky JS Urban AE Zhu X Rinn JL Tongprasit W Samanta M Weissman S Gerstein M Snyder M Global identification of human transcribed sequences with genome tiling arrays. Science 2004, 306:2242-2246. 10.1126/science.1103388 15539566
-
(2004)
Science
, vol.306
, pp. 2242-2246
-
-
Bertone, P.1
Stolc, V.2
Royce, T.E.3
Rozowsky, J.S.4
Urban, A.E.5
Zhu, X.6
Rinn, J.L.7
Tongprasit, W.8
Samanta, M.9
Weissman, S.10
Gerstein, M.11
Snyder, M.12
-
92
-
-
0038349624
-
Impact of alternative initiation, splicing, and termination on the diversity of the mRNA transcripts encoded by the mouse transcriptome
-
403716 10.1101/gr.1017303
-
Zavolan M Kondo S Schonbach C Adachi J Hume DA Hayashizaki Y Gaasterland T Impact of alternative initiation, splicing, and termination on the diversity of the mRNA transcripts encoded by the mouse transcriptome. Genome Res 2003, 13:1290-1300. 403716 12819126 10.1101/gr.1017303
-
(2003)
Genome Res
, vol.13
, pp. 1290-1300
-
-
Zavolan, M.1
Kondo, S.2
Schonbach, C.3
Adachi, J.4
Hume, D.A.5
Hayashizaki, Y.6
Gaasterland, T.7
-
93
-
-
48049107160
-
Computational analysis of full-length cDNAs reveals frequent coupling between transcriptional and splicing programs
-
2650624 10.1093/dnares/dsm036
-
Chern TM Paul N van Nimwegen E Zavolan M Computational analysis of full-length cDNAs reveals frequent coupling between transcriptional and splicing programs. DNA Res 2008, 15:63-72. 2650624 18276623 10.1093/ dnares/dsm036
-
(2008)
DNA Res
, vol.15
, pp. 63-72
-
-
Chern, T.M.1
Paul, N.2
van Nimwegen, E.3
Zavolan, M.4
-
94
-
-
0033180615
-
Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer
-
10.1016/S1097-2765(00)80372-X 10488340
-
Cramer P Caceres JF Cazalla D Kadener S Muro AF Baralle FE Kornblihtt AR Coupling of transcription with alternative splicing: RNA pol II promoters modulate SF2/ASF and 9G8 effects on an exonic splicing enhancer. Mol Cell 1999, 4:251-258. 10.1016/S1097-2765(00)80372-X 10488340
-
(1999)
Mol Cell
, vol.4
, pp. 251-258
-
-
Cramer, P.1
Caceres, J.F.2
Cazalla, D.3
Kadener, S.4
Muro, A.F.5
Baralle, F.E.6
Kornblihtt, A.R.7
-
95
-
-
34249699043
-
A sequence motif in the simian virus 40 (SV40) early core promoter affects alternative splicing of transcribed mRNA
-
10.1074/jbc.M611126200 17331949
-
Gendra E Colgan DF Meany B Konarska MM A sequence motif in the simian virus 40 (SV40) early core promoter affects alternative splicing of transcribed mRNA. J Biol Chem 2007, 282:11648-11657. 10.1074/ jbc.M611126200 17331949
-
(2007)
J Biol Chem
, vol.282
, pp. 11648-11657
-
-
Gendra, E.1
Colgan, D.F.2
Meany, B.3
Konarska, M.M.4
|