-
1
-
-
21144439147
-
Assessing computational tools for the discovery of transcription factor binding sites
-
10.1038/nbt1053 15637633
-
Tompa M Li N Bailey TL Church GM De Morr B Eskin E Favorov AV Firth MC Fu Y Kent WJ Makeev VJ Mironov AA Noble WS Pavesi G Regnier M Simonis N Sinha S Thijs G van Helden J Vandenbogaert M Weng Z Workman C Ye C Zhu Z Assessing computational tools for the discovery of transcription factor binding sites Nat Biotechnol 2005, 23:137-44. 10.1038/nbt1053 15637633
-
(2005)
Nat Biotechnol
, vol.23
, pp. 137-144
-
-
Tompa, M.1
Li, N.2
Bailey, T.L.3
Church, G.M.4
De Morr, B.5
Eskin, E.6
Favorov, A.V.7
Firth, M.C.8
Fu, Y.9
Kent, W.J.10
Makeev, V.J.11
Mironov, A.A.12
Noble, W.S.13
Pavesi, G.14
Regnier, M.15
Simonis, N.16
Sinha, S.17
Thijs, G.18
van Helden, J.19
Vandenbogaert, M.20
Weng, Z.21
Workman, C.22
Ye, C.23
Zhu, Z.24
more..
-
2
-
-
33746835021
-
Computational identification of transcriptional regulatory elements in DNA sequence
-
1524905 16855295 10.1093/nar/gkl372
-
GuhaThakurta D Computational identification of transcriptional regulatory elements in DNA sequence Nucleic Acids Res 2006, 34:3585-98. 1524905 16855295 10.1093/nar/gkl372
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 3585-3598
-
-
GuhaThakurta, D.1
-
3
-
-
0037174671
-
Transcriptional regulatory networks in Saccharomyces cerevisiae
-
10.1126/science.1075090 12399584
-
Lee TI Rinaldi NJ Robert F Odom DT Bar-Joseph Z Gerber GK Hannett NM Harbison CT Thompson CM Simon I Zeitlinger J Jennings EG Murray HL Gordon DB Ren B Wyrick JJ Tagne JB Volkert TL Fraenkel E Gifford DK Young RA Transcriptional regulatory networks in Saccharomyces cerevisiae Science 2002, 298:799-804. 10.1126/science.1075090 12399584
-
(2002)
Science
, vol.298
, pp. 799-804
-
-
Lee, T.I.1
Rinaldi, N.J.2
Robert, F.3
Odom, D.T.4
Bar-Joseph, Z.5
Gerber, G.K.6
Hannett, N.M.7
Harbison, C.T.8
Thompson, C.M.9
Simon, I.10
Zeitlinger, J.11
Jennings, E.G.12
Murray, H.L.13
Gordon, D.B.14
Ren, B.15
Wyrick, J.J.16
Tagne, J.B.17
Volkert, T.L.18
Fraenkel, E.19
Gifford, D.K.20
Young, R.A.21
more..
-
4
-
-
13444278955
-
Genomic studies of transcription factor-DNA interactions
-
10.1016/j.cbpa.2004.12.008 15701451
-
Sikder D Kodadek T Genomic studies of transcription factor-DNA interactions Curr Opin Chem Biol 2005, 9:38-45. 10.1016/ j.cbpa.2004.12.008 15701451
-
(2005)
Curr Opin Chem Biol
, vol.9
, pp. 38-45
-
-
Sikder, D.1
Kodadek, T.2
-
5
-
-
38549096565
-
JASPAR, the open access database of transcription factor-binding profiles: New content and tools in the 2008 update
-
2238834 18006571 10.1093/nar/gkm955
-
Bryne JC Valen E Tang ME Marstrand T Winther O da Piedade I Krogh A Lenhard B Sandelin A JASPAR, the open access database of transcription factor-binding profiles: New content and tools in the 2008 update Nucl Acids Res 2007, 36:D102-106. 2238834 18006571 10.1093/nar/gkm955
-
(2007)
Nucl Acids Res
, vol.36
-
-
Bryne, J.C.1
Valen, E.2
Tang, M.E.3
Marstrand, T.4
Winther, O.5
da Piedade, I.6
Krogh, A.7
Lenhard, B.8
Sandelin, A.9
-
6
-
-
0037208166
-
TRANSFAC(R): Transcriptional regulation, from patterns to profiles
-
165555 12520026 10.1093/nar/gkg108
-
Matys V Fricke E Geffers R Gössling E Haubrock M Hehl R Hornischer K Karas D Kel AE Kel-Margoulis OV Kloos DU Land S Lewicki-Potapov B Micheal H Münch R Reuter I Rotert S Saxel H Scheer M Thiele S Wingender E TRANSFAC(R): Transcriptional regulation, from patterns to profiles Nucl Acids Res 2003, 31:374-378. 165555 12520026 10.1093/nar/ gkg108
-
(2003)
Nucl Acids Res
, vol.31
, pp. 374-378
-
-
Matys, V.1
Fricke, E.2
Geffers, R.3
Gössling, E.4
Haubrock, M.5
Hehl, R.6
Hornischer, K.7
Karas, D.8
Kel, A.E.9
Kel-Margoulis, O.V.10
Kloos, D.U.11
Land, S.12
Lewicki-Potapov, B.13
Micheal, H.14
Münch, R.15
Reuter, I.16
Rotert, S.17
Saxel, H.18
Scheer, M.19
Thiele, S.20
Wingender, E.21
more..
-
7
-
-
33747823564
-
MEME: Discovering and analyzing DNA and protein sequence motifs
-
1538909 16845028 10.1093/nar/gkl198
-
Bailey TL Williams N Misleh C Li WW MEME: Discovering and analyzing DNA and protein sequence motifs Nucleic Acids Res 2006, 34:W369-73. 1538909 16845028 10.1093/nar/gkl198
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Bailey, T.L.1
Williams, N.2
Misleh, C.3
Li, W.W.4
-
8
-
-
0036137323
-
A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling
-
10.1093/bioinformatics/17.12.1113 11751219
-
Thijs G Lescot M Marchal K Rombauts S De Moor B Rouzé P Moreau Y A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling Bioinformatics 2001, 17:1113-22. 10.1093/bioinformatics/17.12.1113 11751219
-
(2001)
Bioinformatics
, vol.17
, pp. 1113-1122
-
-
Thijs, G.1
Lescot, M.2
Marchal, K.3
Rombauts, S.4
De Moor, B.5
Rouzé, P.6
Moreau, Y.7
-
9
-
-
0344906814
-
Combining phylogenetic data with co-regulated genes to identify regulatory motifs
-
10.1093/bioinformatics/btg329 14668220
-
Wang T Stormo GD Combining phylogenetic data with co-regulated genes to identify regulatory motifs Bioinformatics 2003, 19:2369-80. 10.1093/ bioinformatics/btg329 14668220
-
(2003)
Bioinformatics
, vol.19
, pp. 2369-2380
-
-
Wang, T.1
Stormo, G.D.2
-
10
-
-
13244260826
-
PhyME: A probabilistic algorithm for finding motifs in sets of orthologous sequences
-
534098 15511292 10.1186/1471-2105-5-170
-
Sinha S Blanchette M Tompa M PhyME: A probabilistic algorithm for finding motifs in sets of orthologous sequences BMC Bioinformatics 2004, 5:170. 534098 15511292 10.1186/1471-2105-5-170
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 170
-
-
Sinha, S.1
Blanchette, M.2
Tompa, M.3
-
11
-
-
33750218960
-
PhyloGibbs: A Gibbs sampling motif finder that incorporates phylogeny
-
1309704 16477324 10.1371/journal.pcbi.0010067
-
Siddharthan R Siggia ED van Nimwegen E PhyloGibbs: A Gibbs sampling motif finder that incorporates phylogeny PLoS Comput Biol 2005, 1:e67. 1309704 16477324 10.1371/journal.pcbi.0010067
-
(2005)
PLoS Comput Biol
, vol.1
-
-
Siddharthan, R.1
Siggia, E.D.2
van Nimwegen, E.3
-
13
-
-
22344437987
-
Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach
-
551538 15693947 10.1186/gb-2005-6-2-r18
-
Elemento O Tavazoie S Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach Genome Biol 2005, 6:R18. 551538 15693947 10.1186/gb-2005-6-2-r18
-
(2005)
Genome Biol
, vol.6
-
-
Elemento, O.1
Tavazoie, S.2
-
14
-
-
0034628901
-
Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae
-
10.1006/jmbi.2000.3519 10698627
-
Hughes JD Estep PW Tavazoie S Church GM Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae J Mol Biol 2000, 296:1205-14. 10.1006/ jmbi.2000.3519 10698627
-
(2000)
J Mol Biol
, vol.296
, pp. 1205-1214
-
-
Hughes, J.D.1
Estep, P.W.2
Tavazoie, S.3
Church, G.M.4
-
15
-
-
0038349948
-
Sequencing and comparison of yeast species to identify genes and regulatory elements
-
10.1038/nature01644 12748633
-
Kellis M Patterson N Endrizzi M Birren B Lander ES Sequencing and comparison of yeast species to identify genes and regulatory elements Nature 2003, 423:241-54. 10.1038/nature01644 12748633
-
(2003)
Nature
, vol.423
, pp. 241-254
-
-
Kellis, M.1
Patterson, N.2
Endrizzi, M.3
Birren, B.4
Lander, E.S.5
-
16
-
-
36049018312
-
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
-
2474711 17994088 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 Harvard FlyBase curators; Berkeley Drosophila Genome Project 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 Dewey CN Pachter L Kent WJ Haussler D Lai EC Bartel DP Hannon GJ Kaufman TC Eisen MB Clark AG Smith D Celniker SE Gelbart WM Kellis M Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures Nature 2007, 450:219-32. 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
Dewey, C.N.31
Pachter, L.32
Kent, W.J.33
Haussler, D.34
Lai, E.C.35
Bartel, D.P.36
Hannon, G.J.37
Kaufman, T.C.38
Eisen, M.B.39
Clark, A.G.40
Smith, D.41
Celniker, S.E.42
Gelbart, W.M.43
Kellis, M.44
more..
-
17
-
-
33847704925
-
Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics
-
1794593 17090307 10.1186/gb-2006-7-11-r103
-
Vandepoele K Casneuf T Peer Van de Y Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics Genome Biol 2006, 7:R103. 1794593 17090307 10.1186/ gb-2006-7-11-r103
-
(2006)
Genome Biol
, vol.7
-
-
Vandepoele, K.1
Casneuf, T.2
Peer, Y.3
-
18
-
-
33845669975
-
Large-scale cis-element detection by analysis of correlated expression and sequence conservation between Arabidopsis and Brassica oleracea
-
1676041 17028152 10.1104/pp.106.085639
-
Haberer G Mader MT Kosarev P Spannagl M Yang L Mayer KFX Large-scale cis-element detection by analysis of correlated expression and sequence conservation between Arabidopsis and Brassica oleracea Plant Physiol 2006, 142(1589):602. 1676041 17028152 10.1104/pp.106.085639
-
(2006)
Plant Physiol
, vol.142
, Issue.1589
, pp. 1589-1602
-
-
Haberer, G.1
Mader, M.T.2
Kosarev, P.3
Spannagl, M.4
Yang, L.5
Mayer, K.F.X.6
-
19
-
-
0038028675
-
Conserved noncoding sequences among cultivated cereal genomes identify candidate regulatory sequence elements and patterns of promoter evolution
-
153722 12724540 10.1105/tpc.010181
-
Guo H Moose SP Conserved noncoding sequences among cultivated cereal genomes identify candidate regulatory sequence elements and patterns of promoter evolution Plant Cell 2003, 15:1143-58. 153722 12724540 10.1105/ tpc.010181
-
(2003)
Plant Cell
, vol.15
, pp. 1143-1158
-
-
Guo, H.1
Moose, S.P.2
-
20
-
-
58449137410
-
The Sorghum bicolor genome and the diversification of grasses
-
10.1038/nature07723 19189423
-
Paterson AH Bowers JE Bruggmann R Dubchak I Grimwood J Gundlach H Haberer G Hellsten U Mitros T Poliakov A Schmutz J Spannagl M Tang H Wang X Wicker T Bharti AK Chapman J Feltus FA Gowik U Grigoriev IV Lyons E Maher CA Martis M Narechania A Otillar RP Penning BW Salamov AA Wang Y Zhang L Carpita NC Freeling M Gingle AR Hash CT Keller B Klein P Kresovich S McCann MC Ming R Peterson DG Mehboob-ur-Rahman Ware D Westhoff P Mayer KF Messing J Rokhsar DS The Sorghum bicolor genome and the diversification of grasses Nature 2009, 457(7229):551-556. 10.1038/ nature07723 19189423
-
(2009)
Nature
, vol.457
, Issue.7229
, pp. 551-556
-
-
Paterson, A.H.1
Bowers, J.E.2
Bruggmann, R.3
Dubchak, I.4
Grimwood, J.5
Gundlach, H.6
Haberer, G.7
Hellsten, U.8
Mitros, T.9
Poliakov, A.10
Schmutz, J.11
Spannagl, M.12
Tang, H.13
Wang, X.14
Wicker, T.15
Bharti, A.K.16
Chapman, J.17
Feltus, F.A.18
Gowik, U.19
Grigoriev, I.V.20
Lyons, E.21
Maher, C.A.22
Martis, M.23
Narechania, A.24
Otillar, R.P.25
Penning, B.W.26
Salamov, A.A.27
Wang, Y.28
Zhang, L.29
Carpita, N.C.30
Freeling, M.31
Gingle, A.R.32
Hash, C.T.33
Keller, B.34
Klein, P.35
Kresovich, S.36
McCann, M.C.37
Ming, R.38
Peterson, D.G.39
Mehboob-ur-Rahman Ware, D.40
Westhoff, P.41
Mayer, K.F.42
Messing, J.43
Rokhsar, D.S.44
more..
-
21
-
-
12444347410
-
A high-density genetic recombination map of sequence-tagged sites for sorghum, as a framework for comparative structural and evolutionary genomics of tropical grains and grasses
-
1462765 14504243
-
Bowers JE Abbey C Anderson S Chang C Draye X Hoppe AH Jessup R Lemke C Lennington J Li Z Lin YR Liu SC Luo L Marler BS Ming R Mitchell SE Qiang D Reischmann K Schulze SR Skinner DN Wang YW Kresovich S Schertz KF Paterson AH A high-density genetic recombination map of sequence-tagged sites for sorghum, as a framework for comparative structural and evolutionary genomics of tropical grains and grasses Genetics 2003, 165:367-86. 1462765 14504243
-
(2003)
Genetics
, vol.165
, pp. 367-386
-
-
Bowers, J.E.1
Abbey, C.2
Anderson, S.3
Chang, C.4
Draye, X.5
Hoppe, A.H.6
Jessup, R.7
Lemke, C.8
Lennington, J.9
Li, Z.10
Lin, Y.R.11
Liu, S.C.12
Luo, L.13
Marler, B.S.14
Ming, R.15
Mitchell, S.E.16
Qiang, D.17
Reischmann, K.18
Schulze, S.R.19
Skinner, D.N.20
Wang, Y.W.21
Kresovich, S.22
Schertz, K.F.23
Paterson, A.H.24
more..
-
22
-
-
24344508130
-
A microarray analysis of the rice transcriptome and its comparison to Arabidopsis
-
1199542 16140994 10.1101/gr.3657405
-
Ma L Chen C Liu X Jiao Y Su N Li L Wang X Cao M Sun N Zhang X Bao J Li J Pedersen S Bolund L Zhao H Yuan L Wong GK Wang J Deng XW Wang J A microarray analysis of the rice transcriptome and its comparison to Arabidopsis Genome Res 2005, 15:1274-1283. 1199542 16140994 10.1101/ gr.3657405
-
(2005)
Genome Res
, vol.15
, pp. 1274-1283
-
-
Ma, L.1
Chen, C.2
Liu, X.3
Jiao, Y.4
Su, N.5
Li, L.6
Wang, X.7
Cao, M.8
Sun, N.9
Zhang, X.10
Bao, J.11
Li, J.12
Pedersen, S.13
Bolund, L.14
Zhao, H.15
Yuan, L.16
Wong, G.K.17
Wang, J.18
Deng, X.W.19
Wang, J.20
more..
-
23
-
-
33644876658
-
Plant MPSS databases: Signature-based transcriptional resources for analyses of mRNA and small RNA
-
10.1093/nar/gkj077
-
Nakano M Nobuta K Vemaraju K Tej SS Skogen JW Meyers BC Plant MPSS databases: Signature-based transcriptional resources for analyses of mRNA and small RNA Nucleic Acids Res 2006, 34:731. 10.1093/nar/gkj077
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 731
-
-
Nakano, M.1
Nobuta, K.2
Vemaraju, K.3
Tej, S.S.4
Skogen, J.W.5
Meyers, B.C.6
-
24
-
-
33847273640
-
Global genome expression analysis of rice in response to drought and high-salinity stresses in shoot, flag leaf, and panicle
-
1805039 17225073 10.1007/s11103-006-9111-1
-
Zhou J Wang X Jiao Y Qin Y Liu X He K Chen C Ma L Wang J Xiong L Zhang Q Fan L Deng XW Global genome expression analysis of rice in response to drought and high-salinity stresses in shoot, flag leaf, and panicle Plant Mol Biol 2007, 63:591-608. 1805039 17225073 10.1007/ s11103-006-9111-1
-
(2007)
Plant Mol Biol
, vol.63
, pp. 591-608
-
-
Zhou, J.1
Wang, X.2
Jiao, Y.3
Qin, Y.4
Liu, X.5
He, K.6
Chen, C.7
Ma, L.8
Wang, J.9
Xiong, L.10
Zhang, Q.11
Fan, L.12
Deng, X.W.13
-
25
-
-
84907150192
-
The map-based sequence of the rice genome
-
International Rice Genome Sequencing Project 10.1038/nature03895 16100779
-
International Rice Genome Sequencing Project The map-based sequence of the rice genome Nature 2005, 436:793-800. 10.1038/nature03895 16100779
-
(2005)
Nature
, vol.436
, pp. 793-800
-
-
-
26
-
-
0034649566
-
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
-
Arabidopsis Genome Initiative 10.1038/35048692 11130711
-
Arabidopsis Genome Initiative Analysis of the genome sequence of the flowering plant Arabidopsis thaliana Nature 2000, 408:796-815. 10.1038/ 35048692 11130711
-
(2000)
Nature
, vol.408
, pp. 796-815
-
-
-
27
-
-
36549070570
-
Fastcompare: A nonalignment approach for genome-scale discovery of DNA and mRNA regulatory elements using network-level conservation
-
17993685
-
Elemento O Tavazoie S Fastcompare: A nonalignment approach for genome-scale discovery of DNA and mRNA regulatory elements using network-level conservation Methods Mol Biol 2007, 395:349-66. 17993685
-
(2007)
Methods Mol Biol
, vol.395
, pp. 349-366
-
-
Elemento, O.1
Tavazoie, S.2
-
28
-
-
0033389293
-
Plant interstitial telomere motifs participate in the control of gene expression in root meristems
-
10.1046/j.1365-313X.1999.00627.x 10652127
-
Tremousaygue D Manevski A Bardet C Lescure N Lescure B Plant interstitial telomere motifs participate in the control of gene expression in root meristems Plant J 1999, 20:553-61. 10.1046/ j.1365-313X.1999.00627.x 10652127
-
(1999)
Plant J
, vol.20
, pp. 553-561
-
-
Tremousaygue, D.1
Manevski, A.2
Bardet, C.3
Lescure, N.4
Lescure, B.5
-
29
-
-
0037356816
-
Internal telomeric repeats and 'TCP domain' protein-binding sites co-operate to regulate gene expression in Arabidopsis thaliana cycling cells
-
10.1046/j.1365-313X.2003.01682.x 12631321
-
Trémousaygue D Garnier L Bardet C Dabos P Hervé C Lescure B Internal telomeric repeats and 'TCP domain' protein-binding sites co-operate to regulate gene expression in Arabidopsis thaliana cycling cells Plant J 2003, 33:957-66. 10.1046/j.1365-313X.2003.01682.x 12631321
-
(2003)
Plant J
, vol.33
, pp. 957-966
-
-
Trémousaygue, D.1
Garnier, L.2
Bardet, C.3
Dabos, P.4
Hervé, C.5
Lescure, B.6
-
30
-
-
18044385016
-
Serpentine plant MLO proteins as entry portals for powdery mildew fungi
-
10.1042/BST0330389 15787613
-
Panstruga R Serpentine plant MLO proteins as entry portals for powdery mildew fungi Biochem Soc Trans 2005, 33:389-92. 10.1042/BST0330389 15787613
-
(2005)
Biochem Soc Trans
, vol.33
, pp. 389-392
-
-
Panstruga, R.1
-
31
-
-
0033200227
-
Early nuclear events in plant defence signalling: Rapid gene activation by WRKY transcription factors
-
1171542 10469648 10.1093/emboj/18.17.4689
-
Eulgem T Rushton PJ Schmelzer E Hahlbrock K Somssich IE Early nuclear events in plant defence signalling: Rapid gene activation by WRKY transcription factors EMBO J 1999, 18:4689-99. 1171542 10469648 10.1093/ emboj/18.17.4689
-
(1999)
EMBO J
, vol.18
, pp. 4689-4699
-
-
Eulgem, T.1
Rushton, P.J.2
Schmelzer, E.3
Hahlbrock, K.4
Somssich, I.E.5
-
32
-
-
0032918558
-
Plant cis-acting regulatory DNA elements (PLACE) database: 1999
-
148163 9847208 10.1093/nar/27.1.297
-
Higo K Ugawa Y Iwamoto M Korenaga T Plant cis-acting regulatory DNA elements (PLACE) database: 1999 Nucleic Acids Res 1999, 27:297-300. 148163 9847208 10.1093/nar/27.1.297
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 297-300
-
-
Higo, K.1
Ugawa, Y.2
Iwamoto, M.3
Korenaga, T.4
-
33
-
-
33845723596
-
Functional conservation of a root hair cell-specific cis-element in angiosperms with different root hair distribution patterns
-
1693936 17098810 10.1105/tpc.106.045229
-
Kim DW Lee SH Choi S Won S Heo Y Cho M Park Y Cho H Functional conservation of a root hair cell-specific cis-element in angiosperms with different root hair distribution patterns Plant Cell 2006, 18:2958-70. 1693936 17098810 10.1105/tpc.106.045229
-
(2006)
Plant Cell
, vol.18
, pp. 2958-2970
-
-
Kim, D.W.1
Lee, S.H.2
Choi, S.3
Won, S.4
Heo, Y.5
Cho, M.6
Park, Y.7
Cho, H.8
-
34
-
-
0033197636
-
ACGT-containing abscisic acid response element (ABRE) and coupling element 3 (CE3) are functionally equivalent
-
10.1046/j.1365-313x.1999.00565.x 10571853
-
Hobo T Asada M Kowyama Y Hattori T ACGT-containing abscisic acid response element (ABRE) and coupling element 3 (CE3) are functionally equivalent The Plant Journal 1999, 19(6):679-689. 10.1046/ j.1365-313x.1999.00565.x 10571853
-
(1999)
The Plant Journal
, vol.19
, Issue.6
, pp. 679-689
-
-
Hobo, T.1
Asada, M.2
Kowyama, Y.3
Hattori, T.4
-
35
-
-
0037819447
-
Transcription regulation and animal diversity
-
10.1038/nature01763 12853946
-
Levine M Tjian R Transcription regulation and animal diversity Nature 2003, 424:147-51. 10.1038/nature01763 12853946
-
(2003)
Nature
, vol.424
, pp. 147-151
-
-
Levine, M.1
Tjian, R.2
-
36
-
-
0034671865
-
Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes
-
10.1126/science.290.5499.2105 11118137
-
Riechmann JL Heard J Martin G Reuber L Jiang C Keddie J Adam L Pineda O Ratcliffe OJ Samaha RR Creelman R Pilgrim M Broun P Zhang JZ Ghandehari D Sherman BK Yu G Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes Science 2000, 290:2105-10. 10.1126/ science.290.5499.2105 11118137
-
(2000)
Science
, vol.290
, pp. 2105-2110
-
-
Riechmann, J.L.1
Heard, J.2
Martin, G.3
Reuber, L.4
Jiang, C.5
Keddie, J.6
Adam, L.7
Pineda, O.8
Ratcliffe, O.J.9
Samaha, R.R.10
Creelman, R.11
Pilgrim, M.12
Broun, P.13
Zhang, J.Z.14
Ghandehari, D.15
Sherman, B.K.16
Yu, G.17
-
37
-
-
26444578198
-
Transcription factors in rice: A genome-wide comparative analysis between monocots and eudicots
-
10.1007/s11103-005-6503-6 16217612
-
Xiong Y Liu T Tian C Sun S Li J Chen M Transcription factors in rice: A genome-wide comparative analysis between monocots and eudicots Plant Mol Biol 2005, 59:191-203. 10.1007/s11103-005-6503-6 16217612
-
(2005)
Plant Mol Biol
, vol.59
, pp. 191-203
-
-
Xiong, Y.1
Liu, T.2
Tian, C.3
Sun, S.4
Li, J.5
Chen, M.6
-
38
-
-
13144251179
-
Plant conserved non-coding sequences and paralogue evolution
-
10.1016/j.tig.2004.11.013 15680516
-
Lockton S Gaut BS Plant conserved non-coding sequences and paralogue evolution Trends Genet 2005, 21:60-5. 10.1016/j.tig.2004.11.013 15680516
-
(2005)
Trends Genet
, vol.21
, pp. 60-65
-
-
Lockton, S.1
Gaut, B.S.2
-
39
-
-
33747772001
-
Arabidopsis endogenous small RNAs: Highways and byways
-
10.1016/j.tplants.2006.07.006 16893673
-
Vazquez F Arabidopsis endogenous small RNAs: Highways and byways Trends Plant Sci 2006, 11:460-8. 10.1016/j.tplants.2006.07.006 16893673
-
(2006)
Trends Plant Sci
, vol.11
, pp. 460-468
-
-
Vazquez, F.1
-
41
-
-
34547134458
-
Genome sequencing. The greening of plant genomics
-
10.1126/science.317.5836.317 17641179
-
Pennisi E Genome sequencing. The greening of plant genomics Science 2007, 317:317. 10.1126/science.317.5836.317 17641179
-
(2007)
Science
, vol.317
, pp. 317
-
-
Pennisi, E.1
-
42
-
-
2942553957
-
The use of MPSS for whole-genome Transcriptional analysis in Arabidopsis
-
509274 15289482 10.1101/gr.2275604
-
Meyers BC Tej SS Vu TH Haudenschild CD Agrawal V Edberg SB Ghazal H Decola S The use of MPSS for whole-genome Transcriptional analysis in Arabidopsis Genome Res 2004, 14:1641-1653. 509274 15289482 10.1101/ gr.2275604
-
(2004)
Genome Res
, vol.14
, pp. 1641-1653
-
-
Meyers, B.C.1
Tej, S.S.2
Vu, T.H.3
Haudenschild, C.D.4
Agrawal, V.5
Edberg, S.B.6
Ghazal, H.7
Decola, S.8
-
43
-
-
3042602438
-
Methods for Transcriptional profiling in plants. Be fruitful and replicate
-
514100 15173570 10.1104/pp.104.040840
-
Meyers BC Galbraith DW Nelson T Agrawal V Methods for Transcriptional profiling in plants. Be fruitful and replicate Plant Physiology 2004, 135:637-652. 514100 15173570 10.1104/pp.104.040840
-
(2004)
Plant Physiology
, vol.135
, pp. 637-652
-
-
Meyers, B.C.1
Galbraith, D.W.2
Nelson, T.3
Agrawal, V.4
-
44
-
-
0037442493
-
The transcriptional activity of human chromosome 22
-
195998 12600945 10.1101/gad.1055203
-
Rinn JL Euskirchen G Bertone P Martone R Luscombe NM Hartman S Harrison PM Nelson FK Miller P Gerstein M Weissman S Snyder M The transcriptional activity of human chromosome 22 Genes & Dev 2003, 17:529-540. 195998 12600945 10.1101/gad.1055203
-
(2003)
Genes & Dev
, vol.17
, pp. 529-540
-
-
Rinn, J.L.1
Euskirchen, G.2
Bertone, P.3
Martone, R.4
Luscombe, N.M.5
Hartman, S.6
Harrison, P.M.7
Nelson, F.K.8
Miller, P.9
Gerstein, M.10
Weissman, S.11
Snyder, M.12
-
45
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini Y Hochberg Y Controlling the false discovery rate: A practical and powerful approach to multiple testing J R Stat Soc Ser B Methodol 1995, 57:289-300.
-
(1995)
J R Stat Soc Ser B Methodol
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
|