-
1
-
-
54249116230
-
Genetic regulatory mechanisms in the synthesis of proteins
-
Jacob, F. and Monod, J. (1961) Genetic regulatory mechanisms in the synthesis of proteins. J. Mol. Biol., 3, 318-356.
-
(1961)
J. Mol. Biol.
, vol.3
, pp. 318-356
-
-
Jacob, F.1
Monod, J.2
-
2
-
-
0033538531
-
Fundamentally different logic of gene regulation in eukaryotes and prokaryotes
-
Struhl, K. (1999) Fundamentally different logic of gene regulation in eukaryotes and prokaryotes. Cell, 98, 1-4.
-
(1999)
Cell
, vol.98
, pp. 1-4
-
-
Struhl, K.1
-
3
-
-
0034625265
-
Endless forms: The evolution of gene regulation and morphological diversity
-
Carroll, S. B. (2000) Endless forms: the evolution of gene regulation and morphological diversity. Cell, 101, 577-580.
-
(2000)
Cell
, vol.101
, pp. 577-580
-
-
Carroll, S.B.1
-
4
-
-
0037819447
-
Transcription regulation and animal diversity
-
Levine, M. and Tjian, R. (2003) Transcription regulation and animal diversity. Nature, 424, 147-151.
-
(2003)
Nature
, vol.424
, pp. 147-151
-
-
Levine, M.1
Tjian, R.2
-
5
-
-
33747195353
-
Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors
-
Takahashi, K. and Yamanaka, S. (2006) Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors. Cell, 126, 663-676.
-
(2006)
Cell
, vol.126
, pp. 663-676
-
-
Takahashi, K.1
Yamanaka, S.2
-
6
-
-
34249908901
-
In vitro reprogramming of fibroblasts into a pluripotent ES-cell-like state
-
Wernig, M., Meissner, A., Foreman, R., Brambrink, T., Ku, M., Hochedlinger, K., Bernstein, B. E. and Jaenisch, R. (2007) In vitro reprogramming of fibroblasts into a pluripotent ES-cell-like state. Nature, 448, 318-324.
-
(2007)
Nature
, vol.448
, pp. 318-324
-
-
Wernig, M.1
Meissner, A.2
Foreman, R.3
Brambrink, T.4
Ku, M.5
Hochedlinger, K.6
Bernstein, B.E.7
Jaenisch, R.8
-
7
-
-
33746748243
-
An overview of the structures of protein-DNA complexes
-
Luscombe, N. M., Austin, S. E., Berman, H. M. and Thornton, J. M. (2000) An overview of the structures of protein-DNA complexes. Genome Biol, 1, REVIEWS001.
-
(2000)
Genome Biol
, vol.1
-
-
Luscombe, N.M.1
Austin, S.E.2
Berman, H.M.3
Thornton, J.M.4
-
8
-
-
9644268153
-
Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays
-
Mukherjee, S., Berger, M. F., Jona, G., Wang, X. S., Muzzey, D., Snyder, M., Young, R. A. and Bulyk, M. L. (2004) Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays. Nat. Genet., 36, 1331-1339.
-
(2004)
Nat. Genet.
, vol.36
, pp. 1331-1339
-
-
Mukherjee, S.1
Berger, M.F.2
Jona, G.3
Wang, X.S.4
Muzzey, D.5
Snyder, M.6
Young, R.A.7
Bulyk, M.L.8
-
9
-
-
34250632417
-
High-throughput assay for determining specificity and affinity of protein-DNA binding interactions
-
Hallikas, O. and Taipale, J. (2006) High-throughput assay for determining specificity and affinity of protein-DNA binding interactions. Nat. Protoc., 1, 215-222.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 215-222
-
-
Hallikas, O.1
Taipale, J.2
-
10
-
-
33644855479
-
Expression profiling in primates reveals a rapid evolution of human transcription factors
-
Gilad, Y., Oshlack, A., Smyth, G. K., Speed, T. P. and White, K. P. (2006) Expression profiling in primates reveals a rapid evolution of human transcription factors. Nature, 440, 242-245.
-
(2006)
Nature
, vol.440
, pp. 242-245
-
-
Gilad, Y.1
Oshlack, A.2
Smyth, G.K.3
Speed, T.P.4
White, K.P.5
-
11
-
-
34250661506
-
Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system
-
Meng, X. and Wolfe, S. A. (2006) Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system. Nat. Protoc., 1, 30-45.
-
(2006)
Nat. Protoc.
, vol.1
, pp. 30-45
-
-
Meng, X.1
Wolfe, S.A.2
-
12
-
-
7444267933
-
A gateway-compatible yeast one-hybrid system
-
Deplancke, B., Dupuy, D., Vidal, M. and Walhout, A. J. (2004) A gateway-compatible yeast one-hybrid system. Genome Res., 14, 2093-2101.
-
(2004)
Genome Res.
, vol.14
, pp. 2093-2101
-
-
Deplancke, B.1
Dupuy, D.2
Vidal, M.3
Walhout, A.J.4
-
13
-
-
38549146907
-
DBD-taxonomically broad transcription factor predictions: New content and functionality
-
Wilson, D., Charoensawan, V., Kummerfeld, S. K. and Teichmann, S. A. (2008) DBD-taxonomically broad transcription factor predictions: new content and functionality. Nucleic Acids Res., 36, D88-D92.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Wilson, D.1
Charoensawan, V.2
Kummerfeld, S.K.3
Teichmann, S.A.4
-
14
-
-
0036777599
-
Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains
-
Fleischmann, R. D., Alland, D., Eisen, J. A., Carpenter, L., White, O., Peterson, J., DeBoy, R., Dodson, R., Gwinn, M., Haft, D. et al. (2002) Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains. J. Bacteriol., 184, 5479-5490.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 5479-5490
-
-
Fleischmann, R.D.1
Alland, D.2
Eisen, J.A.3
Carpenter, L.4
White, O.5
Peterson, J.6
Deboy, R.7
Dodson, R.8
Gwinn, M.9
Haft, D.10
-
15
-
-
57149085868
-
Genomics of bacteria and archaea: The emerging dynamic view of the prokaryotic world
-
Koonin, E. V. and Wolf, Y. I. (2008) Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world. Nucleic Acids Res., 36, 6688-6719.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 6688-6719
-
-
Koonin, E.V.1
Wolf, Y.I.2
-
16
-
-
0033485460
-
DNA-binding proteins and evolution of transcription regulation in the archaea
-
Aravind, L. and Koonin, E. V. (1999) DNA-binding proteins and evolution of transcription regulation in the archaea. Nucleic Acids Res., 27, 4658-4670.
-
(1999)
Nucleic Acids Res.
, vol.27
, pp. 4658-4670
-
-
Aravind, L.1
Koonin, E.V.2
-
17
-
-
34250899110
-
Lineage-specific partitions in archaeal transcription
-
Coulson, R. M., Touboul, N. and Ouzounis, C. A. (2007) Lineage-specific partitions in archaeal transcription. Archaea, 2, 117-125.
-
(2007)
Archaea
, vol.2
, pp. 117-125
-
-
Coulson, R.M.1
Touboul, N.2
Ouzounis, C.A.3
-
18
-
-
9544237144
-
Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea
-
Perez-Rueda, E., Collado-Vides, J. and Segovia, L. (2004) Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea. Comput. Biol. Chem., 28, 341-350.
-
(2004)
Comput. Biol. Chem.
, vol.28
, pp. 341-350
-
-
Perez-Rueda, E.1
Collado-Vides, J.2
Segovia, L.3
-
19
-
-
33646596266
-
Genome-wide survey of transcription factors in prokaryotes reveals many bacteria-specific families not found in archaea
-
Minezaki, Y., Homma, K. and Nishikawa, K. (2005) Genome-wide survey of transcription factors in prokaryotes reveals many bacteria-specific families not found in archaea. DNA Res., 12, 269-280.
-
(2005)
DNA Res.
, vol.12
, pp. 269-280
-
-
Minezaki, Y.1
Homma, K.2
Nishikawa, K.3
-
20
-
-
75549090603
-
The Pfam protein families database
-
Finn, R. D., Mistry, J., Tate, J., Coggill, P., Heger, A., Pollington, J. E., Gavin, O. L., Gunasekaran, P., Ceric, G., Forslund, K. et al. (2010) The Pfam protein families database. Nucleic Acids Res., 38, D211-D222.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Finn, R.D.1
Mistry, J.2
Tate, J.3
Coggill, P.4
Heger, A.5
Pollington, J.E.6
Gavin, O.L.7
Gunasekaran, P.8
Ceric, G.9
Forslund, K.10
-
21
-
-
33748679406
-
Identification and analysis of DNA-binding transcription factors in Bacillus subtilis and other Firmicutes - A genomic approach
-
Moreno-Campuzano, S., Janga, S. C. and Perez-Rueda, E. (2006) Identification and analysis of DNA-binding transcription factors in Bacillus subtilis and other Firmicutes-a genomic approach. BMC Genomics, 7, 147.
-
(2006)
BMC Genomics
, vol.7
, pp. 147
-
-
Moreno-Campuzano, S.1
Janga, S.C.2
Perez-Rueda, E.3
-
22
-
-
25444441531
-
The individual and common repertoire of DNA-binding transcriptional regulators of Corynebacterium glutamicum, Corynebacterium efficiens, Corynebacterium diphtheriae and Corynebacterium jeikeium deduced from the complete genome sequences
-
Brune, I., Brinkrolf, K., Kalinowski, J., Puhler, A. and Tauch, A. (2005) The individual and common repertoire of DNA-binding transcriptional regulators of Corynebacterium glutamicum, Corynebacterium efficiens, Corynebacterium diphtheriae and Corynebacterium jeikeium deduced from the complete genome sequences. BMC Genomics, 6, 86.
-
(2005)
BMC Genomics
, vol.6
, pp. 86
-
-
Brune, I.1
Brinkrolf, K.2
Kalinowski, J.3
Puhler, A.4
Tauch, A.5
-
23
-
-
10244239321
-
Life with 6000 genes
-
Goffeau, A., Barrell, B. G., Bussey, H., Davis, R. W., Dujon, B., Feldmann, H., Galibert, F., Hoheisel, J. D., Jacq, C., Johnston, M. et al. (1996) Life with 6000 genes. Science, 274, 546, 563-547.
-
(1996)
Science
, vol.274
, Issue.546
, pp. 563-547
-
-
Goffeau, A.1
Barrell, B.G.2
Bussey, H.3
Davis, R.W.4
Dujon, B.5
Feldmann, H.6
Galibert, F.7
Hoheisel, J.D.8
Jacq, C.9
Johnston, M.10
-
24
-
-
0035408587
-
Genome annotation: From sequence to biology
-
Stein, L. (2001) Genome annotation: from sequence to biology. Nat. Rev. Genet., 2, 493-503.
-
(2001)
Nat. Rev. Genet.
, vol.2
, pp. 493-503
-
-
Stein, L.1
-
25
-
-
0034671865
-
Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes
-
Riechmann, J. L., Heard, J., Martin, G., Reuber, L., Jiang, C., Keddie, J., Adam, L., Pineda, O., Ratcliffe, O. J., Samaha, R. R. et al. (2000) Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 290, 2105-2110.
-
(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
-
26
-
-
0037440195
-
The phylogenetic diversity of eukaryotic transcription
-
Coulson, R. M. and Ouzounis, C. A. (2003) The phylogenetic diversity of eukaryotic transcription. Nucleic Acids Res., 31, 653-660.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 653-660
-
-
Coulson, R.M.1
Ouzounis, C.A.2
-
27
-
-
33644794386
-
Transcription factor families have much higher expansion rates in plants than in animals
-
Shiu, S. H., Shih, M. C. and Li, W. H. (2005) Transcription factor families have much higher expansion rates in plants than in animals. Plant Physiol., 139, 18-26.
-
(2005)
Plant Physiol.
, vol.139
, pp. 18-26
-
-
Shiu, S.H.1
Shih, M.C.2
Li, W.H.3
-
28
-
-
49749136166
-
Transcription factors in fungi
-
Shelest, E. (2008) Transcription factors in fungi. FEMS Microbiol Lett., 286, 145-151.
-
(2008)
FEMS Microbiol Lett.
, vol.286
, pp. 145-151
-
-
Shelest, E.1
-
29
-
-
37049002223
-
Comparative genomics of transcription factors and chromatin proteins in parasitic protists and other eukaryotes
-
Iyer, L. M., Anantharaman, V., Wolf, M. Y. and Aravind, L. (2008) Comparative genomics of transcription factors and chromatin proteins in parasitic protists and other eukaryotes. Int. J. Parasitol., 38, 1-31.
-
(2008)
Int. J. Parasitol.
, vol.38
, pp. 1-31
-
-
Iyer, L.M.1
Anantharaman, V.2
Wolf, M.Y.3
Aravind, L.4
-
30
-
-
5444226387
-
An ORFeome-based analysis of human transcription factor genes and the construction of a microarray to interrogate their expression
-
Messina, D. N., Glasscock, J., Gish, W. and Lovett, M. (2004) An ORFeome-based analysis of human transcription factor genes and the construction of a microarray to interrogate their expression. Genome Res., 14, 2041-2047.
-
(2004)
Genome Res.
, vol.14
, pp. 2041-2047
-
-
Messina, D.N.1
Glasscock, J.2
Gish, W.3
Lovett, M.4
-
31
-
-
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
-
32
-
-
33846116032
-
New developments in the InterPro database
-
Mulder, N. J., Apweiler, R., Attwood, T. K., Bairoch, A., Bateman, A., Binns, D., Bork, P., Buillard, V., Cerutti, L., Copley, R. et al. (2007) New developments in the InterPro database. Nucleic Acids Res., 35, D224-D228.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Mulder, N.J.1
Apweiler, R.2
Attwood, T.K.3
Bairoch, A.4
Bateman, A.5
Binns, D.6
Bork, P.7
Buillard, V.8
Cerutti, L.9
Copley, R.10
-
33
-
-
58149199579
-
FlyBase: Enhancing Drosophila Gene Ontology annotations
-
Tweedie, S., Ashburner, M., Falls, K., Leyland, P., McQuilton, P., Marygold, S., Millburn, G., Osumi-Sutherland, D., Schroeder, A., Seal, R. et al. (2009) FlyBase: enhancing Drosophila Gene Ontology annotations. Nucleic Acids Res., 37, D555-D559.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Tweedie, S.1
Ashburner, M.2
Falls, K.3
Leyland, P.4
McQuilton, P.5
Marygold, S.6
Millburn, G.7
Osumi-Sutherland, D.8
Schroeder, A.9
Seal, R.10
-
34
-
-
62549128139
-
A census of human transcription factors: Function, expression and evolution
-
Vaquerizas, J. M., Kummerfeld, S. K., Teichmann, S. A. and Luscombe, N. M. (2009) A census of human transcription factors: function, expression and evolution. Nat. Rev. Genet., 10, 252-263.
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 252-263
-
-
Vaquerizas, J.M.1
Kummerfeld, S.K.2
Teichmann, S.A.3
Luscombe, N.M.4
-
35
-
-
75549086416
-
The Genomes on Line Database (GOLD) in 2009: Status of genomic and metagenomic projects and their associated metadata
-
Liolios, K., Chen, I. M., Mavromatis, K., Tavernarakis, N., Hugenholtz, P., Markowitz, V. M. and Kyrpides, N. C. The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res., 38, D346-D354.
-
Nucleic Acids Res.
, vol.38
-
-
Liolios, K.1
Chen, I.M.2
Mavromatis, K.3
Tavernarakis, N.4
Hugenholtz, P.5
Markowitz, V.M.6
Kyrpides, N.C.7
-
36
-
-
27644580858
-
Genomic analysis of LexA binding reveals the permissive nature of the Escherichia coli genome and identifies unconventional target sites
-
Wade, J. T., Reppas, N. B., Church, G. M. and Struhl, K. (2005) Genomic analysis of LexA binding reveals the permissive nature of the Escherichia coli genome and identifies unconventional target sites. Genes Dev., 19, 2619-2630.
-
(2005)
Genes Dev.
, vol.19
, pp. 2619-2630
-
-
Wade, J.T.1
Reppas, N.B.2
Church, G.M.3
Struhl, K.4
-
37
-
-
38549140094
-
RegulonDB (version 6. 0): Gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation
-
Gama-Castro, S., Jimenez-Jacinto, V., Peralta-Gil, M., Santos-Zavaleta, A., Penaloza-Spinola, M. I., Contreras-Moreira, B., Segura-Salazar, J., Muniz-Rascado, L., Martinez-Flores, I., Salgado, H. et al. (2008) RegulonDB (version 6. 0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation. Nucleic Acids Res., 36, D120-D124.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Gama-Castro, S.1
Jimenez-Jacinto, V.2
Peralta-Gil, M.3
Santos-Zavaleta, A.4
Penaloza-Spinola, M.I.5
Contreras-Moreira, B.6
Segura-Salazar, J.7
Muniz-Rascado, L.8
Martinez-Flores, I.9
Salgado, H.10
-
38
-
-
38549162091
-
DBTBS: A database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information
-
Sierro, N., Makita, Y., de Hoon, M. and Nakai, K. (2008) DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information. Nucleic Acids Res., 36, D93-D96.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Sierro, N.1
Makita, Y.2
De Hoon, M.3
Nakai, K.4
-
39
-
-
58149193249
-
PRODORIC (release 2009): A database and tool platform for the analysis of gene regulation in prokaryotes
-
Grote, A., Klein, J., Retter, I., Haddad, I., Behling, S., Bunk, B., Biegler, I., Yarmolinetz, S., Jahn, D. and Munch, R. (2009) PRODORIC (release 2009): a database and tool platform for the analysis of gene regulation in prokaryotes. Nucleic Acids Res., 37, D61-D65.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Grote, A.1
Klein, J.2
Retter, I.3
Haddad, I.4
Behling, S.5
Bunk, B.6
Biegler, I.7
Yarmolinetz, S.8
Jahn, D.9
Munch, R.10
-
40
-
-
33846107772
-
RegTransBase - A database of regulatory sequences and interactions in a wide range of prokaryotic genomes
-
Kazakov, A. E., Cipriano, M. J., Novichkov, P. S., Minovitsky, S., Vinogradov, D. V., Arkin, A., Mironov, A. A., Gelfand, M. S. and Dubchak, I. (2007) RegTransBase-a database of regulatory sequences and interactions in a wide range of prokaryotic genomes. Nucleic Acids Res., 35, D407-D412.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Kazakov, A.E.1
Cipriano, M.J.2
Novichkov, P.S.3
Minovitsky, S.4
Vinogradov, D.V.5
Arkin, A.6
Mironov, A.A.7
Gelfand, M.S.8
Dubchak, I.9
-
41
-
-
8844258763
-
BacTregulators: A database of transcriptional regulators in bacteria and archaea
-
Martinez-Bueno, M., Molina-Henares, A. J., Pareja, E., Ramos, J. L. and Tobes, R. (2004) BacTregulators: a database of transcriptional regulators in bacteria and archaea. Bioinformatics, 20, 2787-2791.
-
(2004)
Bioinformatics
, vol.20
, pp. 2787-2791
-
-
Martinez-Bueno, M.1
Molina-Henares, A.J.2
Pareja, E.3
Ramos, J.L.4
Tobes, R.5
-
42
-
-
38049144241
-
CoryneRegNet 4. 0 - A reference database for corynebacterial gene regulatory networks
-
Baumbach, J. (2007) CoryneRegNet 4. 0 - A reference database for corynebacterial gene regulatory networks. BMC Bioinformatics, 8, 429.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 429
-
-
Baumbach, J.1
-
43
-
-
34247853207
-
CTFbase: A database for comparative genomics of transcription factors in cyanobacteria
-
Wu, J., Zhao, F., Wang, S., Deng, G., Wang, J., Bai, J., Lu, J., Qu, J. and Bao, Q. (2007) cTFbase: a database for comparative genomics of transcription factors in cyanobacteria. BMC Genomics, 8, 104.
-
(2007)
BMC Genomics
, vol.8
, pp. 104
-
-
Wu, J.1
Zhao, F.2
Wang, S.3
Deng, G.4
Wang, J.5
Bai, J.6
Lu, J.7
Qu, J.8
Bao, Q.9
-
44
-
-
0037264370
-
Genomics and chloroplast evolution: What did cyanobacteria do for plants?
-
Raven, J. A. and Allen, J. F. (2003) Genomics and chloroplast evolution: what did cyanobacteria do for plants? Genome Biol., 4, 209.
-
(2003)
Genome Biol.
, vol.4
, pp. 209
-
-
Raven, J.A.1
Allen, J.F.2
-
45
-
-
37349055176
-
ArchaeaTF: An integrated database of putative transcription factors in Archaea
-
Wu, J., Wang, S., Bai, J., Shi, L., Li, D., Xu, Z., Niu, Y., Lu, J. and Bao, Q. (2008) ArchaeaTF: an integrated database of putative transcription factors in Archaea. Genomics, 91, 102-107.
-
(2008)
Genomics
, vol.91
, pp. 102-107
-
-
Wu, J.1
Wang, S.2
Bai, J.3
Shi, L.4
Li, D.5
Xu, Z.6
Niu, Y.7
Lu, J.8
Bao, Q.9
-
46
-
-
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. JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. Nucleic Acids Res., 38, D105-D110.
-
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
-
47
-
-
34249792100
-
PlanTAPDB, a phylogeny-based resource of plant transcription-associated proteins
-
Richardt, S., Lang, D., Reski, R., Frank, W. and Rensing, S. A. (2007) PlanTAPDB, a phylogeny-based resource of plant transcription-associated proteins. Plant Physiol., 143, 1452-1466.
-
(2007)
Plant Physiol.
, vol.143
, pp. 1452-1466
-
-
Richardt, S.1
Lang, D.2
Reski, R.3
Frank, W.4
Rensing, S.A.5
-
48
-
-
38549132439
-
PlantTFDB: A comprehensive plant transcription factor database
-
Guo, A. Y., Chen, X., Gao, G., Zhang, H., Zhu, Q. H., Liu, X. C., Zhong, Y. F., Gu, X., He, K. and Luo, J. (2008) PlantTFDB: a comprehensive plant transcription factor database. Nucleic Acids Res., 36, D966-D969.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Guo, A.Y.1
Chen, X.2
Gao, G.3
Zhang, H.4
Zhu, Q.H.5
Liu, X.C.6
Zhong, Y.F.7
Gu, X.8
He, K.9
Luo, J.10
-
49
-
-
33847267229
-
PlnTFDB: An integrative plant transcription factor database
-
Riano-Pachon, D. M., Ruzicic, S., Dreyer, I. and Mueller-Roeber, B. (2007) PlnTFDB: an integrative plant transcription factor database. BMC Bioinformatics, 8, 42.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 42
-
-
Riano-Pachon, D.M.1
Ruzicic, S.2
Dreyer, I.3
Mueller-Roeber, B.4
-
50
-
-
33646596265
-
RARTF: Database and tools for complete sets of Arabidopsis transcription factors
-
Iida, K., Seki, M., Sakurai, T., Satou, M., Akiyama, K., Toyoda, T., Konagaya, A. and Shinozaki, K. (2005) RARTF: database and tools for complete sets of Arabidopsis transcription factors. DNA Res., 12, 247-256.
-
(2005)
DNA Res.
, vol.12
, pp. 247-256
-
-
Iida, K.1
Seki, M.2
Sakurai, T.3
Satou, M.4
Akiyama, K.5
Toyoda, T.6
Konagaya, A.7
Shinozaki, K.8
-
51
-
-
0347492019
-
AGRIS: Arabidopsis gene regulatory information server, an information resource of Arabidopsis cis-regulatory elements and transcription factors
-
Davuluri, R. V., Sun, H., Palaniswamy, S. K., Matthews, N., Molina, C., Kurtz, M. and Grotewold, E. (2003) AGRIS: Arabidopsis gene regulatory information server, an information resource of Arabidopsis cis-regulatory elements and transcription factors. BMC Bioinformatics, 4, 25.
-
(2003)
BMC Bioinformatics
, vol.4
, pp. 25
-
-
Davuluri, R.V.1
Sun, H.2
Palaniswamy, S.K.3
Matthews, N.4
Molina, C.5
Kurtz, M.6
Grotewold, E.7
-
52
-
-
77649328902
-
SoyDB: A knowledge database of soybean transcription factors
-
Wang, Z., Libault, M., Joshi, T., Valliyodan, B., Nguyen, H. T., Xu, D., Stacey, G. and Cheng, J. (2010) SoyDB: a knowledge database of soybean transcription factors. BMC Plant Biol., 10, 14.
-
(2010)
BMC Plant Biol.
, vol.10
, pp. 14
-
-
Wang, Z.1
Libault, M.2
Joshi, T.3
Valliyodan, B.4
Nguyen, H.T.5
Xu, D.6
Stacey, G.7
Cheng, J.8
-
53
-
-
77952267071
-
WDBTF: An integrated database resource for studying wheat transcription factor families
-
Romeuf, I., Tessier, D., Dardevet, M., Branlard, G., Charmet, G. and Ravel, C. (2010) wDBTF: an integrated database resource for studying wheat transcription factor families. BMC Genomics, 11, 185.
-
(2010)
BMC Genomics
, vol.11
, pp. 185
-
-
Romeuf, I.1
Tessier, D.2
Dardevet, M.3
Branlard, G.4
Charmet, G.5
Ravel, C.6
-
54
-
-
39549109483
-
TOBFAC: The database of tobacco transcription factors
-
Rushton, P. J., Bokowiec, M. T., Laudeman, T. W., Brannock, J. F., Chen, X. and Timko, M. P. (2008) TOBFAC: the database of tobacco transcription factors. BMC Bioinformatics, 9, 53.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 53
-
-
Rushton, P.J.1
Bokowiec, M.T.2
Laudeman, T.W.3
Brannock, J.F.4
Chen, X.5
Timko, M.P.6
-
55
-
-
41349093546
-
FTFD: An informatics pipeline supporting phylogenomic analysis of fungal transcription factors
-
Park, J., Jang, S., Kim, S., Kong, S., Choi, J., Ahn, K., Kim, J., Lee, S., Park, B., Jung, K. et al. (2008) FTFD: an informatics pipeline supporting phylogenomic analysis of fungal transcription factors. Bioinformatics, 24, 1024-1025.
-
(2008)
Bioinformatics
, vol.24
, pp. 1024-1025
-
-
Park, J.1
Jang, S.2
Kim, S.3
Kong, S.4
Choi, J.5
Ahn, K.6
Kim, J.7
Lee, S.8
Park, B.9
Jung, K.10
-
56
-
-
75549090998
-
FlyTF: Improved annotation and enhanced functionality of the Drosophila transcription factor database
-
Pfreundt, U., James, D. P., Tweedie, S., Wilson, D., Teichmann, S. A. and Adryan, B. FlyTF: improved annotation and enhanced functionality of the Drosophila transcription factor database. Nucleic Acids Res., 38, D443-D447.
-
Nucleic Acids Res.
, vol.38
-
-
Pfreundt, U.1
James, D.P.2
Tweedie, S.3
Wilson, D.4
Teichmann, S.A.5
Adryan, B.6
-
57
-
-
33846994717
-
EDGEdb: A transcription factor-DNA interaction database for the analysis of C. elegans differential gene expression
-
Barrasa, M. I., Vaglio, P., Cavasino, F., Jacotot, L. and Walhout, A. J. (2007) EDGEdb: a transcription factor-DNA interaction database for the analysis of C. elegans differential gene expression. BMC Genomics, 8, 21.
-
(2007)
BMC Genomics
, vol.8
, pp. 21
-
-
Barrasa, M.I.1
Vaglio, P.2
Cavasino, F.3
Jacotot, L.4
Walhout, A.J.5
-
58
-
-
4444222696
-
A genome-wide and nonredundant mouse transcription factor database
-
Kanamori, M., Konno, H., Osato, N., Kawai, J., Hayashizaki, Y. and Suzuki, H. (2004) A genome-wide and nonredundant mouse transcription factor database. Biochem. Biophys. Res. Commun., 322, 787-793.
-
(2004)
Biochem. Biophys. Res. Commun.
, vol.322
, pp. 787-793
-
-
Kanamori, M.1
Konno, H.2
Osato, N.3
Kawai, J.4
Hayashizaki, Y.5
Suzuki, H.6
-
59
-
-
53749099231
-
ITFP: An integrated platform of mammalian transcription factors
-
Zheng, G., Tu, K., Yang, Q., Xiong, Y., Wei, C., Xie, L., Zhu, Y. and Li, Y. (2008) ITFP: an integrated platform of mammalian transcription factors. Bioinformatics, 24, 2416-2417.
-
(2008)
Bioinformatics
, vol.24
, pp. 2416-2417
-
-
Zheng, G.1
Tu, K.2
Yang, Q.3
Xiong, Y.4
Wei, C.5
Xie, L.6
Zhu, Y.7
Li, Y.8
-
60
-
-
65249169219
-
TFCat: The curated catalog of mouse and human transcription factors
-
Fulton, D. L., Sundararajan, S., Badis, G., Hughes, T. R., Wasserman, W. W., Roach, J. C. and Sladek, R. (2009) TFCat: the curated catalog of mouse and human transcription factors. Genome Biol., 10, R29.
-
(2009)
Genome Biol.
, vol.10
-
-
Fulton, D.L.1
Sundararajan, S.2
Badis, G.3
Hughes, T.R.4
Wasserman, W.W.5
Roach, J.C.6
Sladek, R.7
-
61
-
-
33644878620
-
DBD: A transcription factor prediction database
-
Kummerfeld, S. K. and Teichmann, S. A. (2006) DBD: a transcription factor prediction database. Nucleic Acids Res., 34, D74-D81.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Kummerfeld, S.K.1
Teichmann, S.A.2
-
62
-
-
0041853625
-
MATCH: A tool for searching transcription factor binding sites in DNA sequences
-
Kel, A. E., Gossling, E., Reuter, I., Cheremushkin, E., Kel-Margoulis, O. V. and Wingender, E. (2003) MATCH: A tool for searching transcription factor binding sites in DNA sequences. Nucleic Acids Res., 31, 3576-3579.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3576-3579
-
-
Kel, A.E.1
Gossling, E.2
Reuter, I.3
Cheremushkin, E.4
Kel-Margoulis, O.V.5
Wingender, E.6
-
63
-
-
25444517056
-
MAPPER: A search engine for the computational identification of putative transcription factor binding sites in multiple genomes
-
Marinescu, V. D., Kohane, I. S. and Riva, A. (2005) MAPPER: a search engine for the computational identification of putative transcription factor binding sites in multiple genomes. BMC Bioinformatics, 6, 79.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 79
-
-
Marinescu, V.D.1
Kohane, I.S.2
Riva, A.3
-
64
-
-
36048966491
-
FlyMine: An integrated database for Drosophila and Anopheles genomics
-
Lyne, R., Smith, R., Rutherford, K., Wakeling, M., Varley, A., Guillier, F., Janssens, H., Ji, W., McLaren, P., North, P. et al. (2007) FlyMine: an integrated database for Drosophila and Anopheles genomics. Genome Biol., 8, R129.
-
(2007)
Genome Biol.
, vol.8
-
-
Lyne, R.1
Smith, R.2
Rutherford, K.3
Wakeling, M.4
Varley, A.5
Guillier, F.6
Janssens, H.7
Ji, W.8
McLaren, P.9
North, P.10
-
65
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S. F., Gish, W., Miller, W., Myers, E. W. and Lipman, D. J. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
66
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W. and Lipman, D. J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
67
-
-
58149203228
-
SUPERFAMILY-sophisticated comparative genomics, data mining, visualization and phylogeny
-
Wilson, D., Pethica, R., Zhou, Y., Talbot, C., Vogel, C., Madera, M., Chothia, C. and Gough, J. (2009) SUPERFAMILY-sophisticated comparative genomics, data mining, visualization and phylogeny. Nucleic Acids Res., 37, D380-D386.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Wilson, D.1
Pethica, R.2
Zhou, Y.3
Talbot, C.4
Vogel, C.5
Madera, M.6
Chothia, C.7
Gough, J.8
-
68
-
-
38549107891
-
The 20 years of PROSITE
-
Hulo, N., Bairoch, A., Bulliard, V., Cerutti, L., Cuche, B. A., de Castro, E., Lachaize, C., Langendijk-Genevaux, P. S. and Sigrist, C. J. (2008) The 20 years of PROSITE. Nucleic Acids Res., 36, D245-D249.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Hulo, N.1
Bairoch, A.2
Bulliard, V.3
Cerutti, L.4
Cuche, B.A.5
De Castro, E.6
Lachaize, C.7
Langendijk-Genevaux, P.S.8
Sigrist, C.J.9
-
69
-
-
12444259635
-
Building an automated classification of DNA-binding protein domains
-
Ponomarenko, J. V., Bourne, P. E. and Shindyalov, I. N. (2002) Building an automated classification of DNA-binding protein domains. Bioinformatics, 18(Suppl. 2), S192-S201.
-
(2002)
Bioinformatics
, vol.18
, Issue.SUPPL. 2
-
-
Ponomarenko, J.V.1
Bourne, P.E.2
Shindyalov, I.N.3
-
70
-
-
69149102637
-
Data deposition and annotation at the worldwide protein data bank
-
Dutta, S., Burkhardt, K., Young, J., Swaminathan, G. J., Matsuura, T., Henrick, K., Nakamura, H. and Berman, H. M. (2009) Data deposition and annotation at the worldwide protein data bank. Mol. Biotechnol., 42, 1-13.
-
(2009)
Mol. Biotechnol.
, vol.42
, pp. 1-13
-
-
Dutta, S.1
Burkhardt, K.2
Young, J.3
Swaminathan, G.J.4
Matsuura, T.5
Henrick, K.6
Nakamura, H.7
Berman, H.M.8
-
71
-
-
66449084442
-
Infrastructure for the life sciences: Design and implementation of the UniProt website
-
Jain, E., Bairoch, A., Duvaud, S., Phan, I., Redaschi, N., Suzek, B. E., Martin, M. J., McGarvey, P. and Gasteiger, E. (2009) Infrastructure for the life sciences: design and implementation of the UniProt website. BMC Bioinformatics, 10, 136.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 136
-
-
Jain, E.1
Bairoch, A.2
Duvaud, S.3
Phan, I.4
Redaschi, N.5
Suzek, B.E.6
Martin, M.J.7
McGarvey, P.8
Gasteiger, E.9
-
72
-
-
0034069495
-
Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner, M., Ball, C. A., Blake, J. A., Botstein, D., Butler, H., Cherry, J. M., Davis, A. P., Dolinski, K., Dwight, S. S., Eppig, J. T. et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
-
(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
-
73
-
-
38549153238
-
Data growth and its impact on the SCOP database: New developments
-
Andreeva, A., Howorth, D., Chandonia, J. M., Brenner, S. E., Hubbard, T. J., Chothia, C. and Murzin, A. G. (2008) Data growth and its impact on the SCOP database: new developments. Nucleic Acids Res., 36, D419-D425.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Andreeva, A.1
Howorth, D.2
Chandonia, J.M.3
Brenner, S.E.4
Hubbard, T.J.5
Chothia, C.6
Murzin, A.G.7
-
74
-
-
25444525409
-
Comparative mapping of sequence-based and structure-based protein domains
-
Zhang, Y., Chandonia, J. M., Ding, C. and Holbrook, S. R. (2005) Comparative mapping of sequence-based and structure-based protein domains. BMC Bioinformatics, 6, 77.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 77
-
-
Zhang, Y.1
Chandonia, J.M.2
Ding, C.3
Holbrook, S.R.4
-
75
-
-
0036415663
-
P53 contains large unstructured regions in its native state
-
Bell, S., Klein, C., Muller, L., Hansen, S. and Buchner, J. (2002) p53 contains large unstructured regions in its native state. J. Mol. Biol., 322, 917-927.
-
(2002)
J. Mol. Biol.
, vol.322
, pp. 917-927
-
-
Bell, S.1
Klein, C.2
Muller, L.3
Hansen, S.4
Buchner, J.5
-
76
-
-
33744829805
-
Human transcription factors contain a high fraction of intrinsically disordered regions essential for transcriptional regulation
-
Minezaki, Y., Homma, K., Kinjo, A. R. and Nishikawa, K. (2006) Human transcription factors contain a high fraction of intrinsically disordered regions essential for transcriptional regulation. J. Mol. Biol., 359, 1137-1149.
-
(2006)
J. Mol. Biol.
, vol.359
, pp. 1137-1149
-
-
Minezaki, Y.1
Homma, K.2
Kinjo, A.R.3
Nishikawa, K.4
-
77
-
-
14644435825
-
Intrinsically unstructured proteins and their functions
-
Dyson, H. J. and Wright, P. E. (2005) Intrinsically unstructured proteins and their functions. Nat. Rev. Mol. Cell Biol., 6, 197-208.
-
(2005)
Nat. Rev. Mol. Cell Biol.
, vol.6
, pp. 197-208
-
-
Dyson, H.J.1
Wright, P.E.2
-
78
-
-
33749451228
-
Coding limits on the number of transcription factors
-
Itzkovitz, S., Tlusty, T. and Alon, U. (2006) Coding limits on the number of transcription factors. BMC Genomics, 7, 239.
-
(2006)
BMC Genomics
, vol.7
, pp. 239
-
-
Itzkovitz, S.1
Tlusty, T.2
Alon, U.3
-
79
-
-
77955846206
-
Lineage-specific expansion of DNA-binding transcription factor families
-
Charoensawan, V., Wilson, D. and Teichmann, S. A. (2010) Lineage-specific expansion of DNA-binding transcription factor families. Trends in Genetics, 26, 388-393.
-
(2010)
Trends in Genetics
, vol.26
, pp. 388-393
-
-
Charoensawan, V.1
Wilson, D.2
Teichmann, S.A.3
-
80
-
-
33845873578
-
The natural history of the WRKY-GCM1 zinc fingers and the relationship between transcription factors and transposons
-
Babu, M. M., Iyer, L. M., Balaji, S. and Aravind, L. (2006) The natural history of the WRKY-GCM1 zinc fingers and the relationship between transcription factors and transposons. Nucleic Acids Res., 34, 6505-6520.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 6505-6520
-
-
Babu, M.M.1
Iyer, L.M.2
Balaji, S.3
Aravind, L.4
-
81
-
-
0037440734
-
Evolution of transcription factors and the gene regulatory network in Escherichia coli
-
Madan Babu, M. and Teichmann, S. A. (2003) Evolution of transcription factors and the gene regulatory network in Escherichia coli. Nucleic Acids Res., 31, 1234-1244.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 1234-1244
-
-
Madan Babu, M.1
Teichmann, S.A.2
-
82
-
-
2442631981
-
Convergent evolution of gene networks by single-gene duplications in higher eukaryotes
-
Amoutzias, G. D., Robertson, D. L., Oliver, S. G. and Bornberg-Bauer, E. (2004) Convergent evolution of gene networks by single-gene duplications in higher eukaryotes. EMBO Rep., 5, 274-279.
-
(2004)
EMBO Rep.
, vol.5
, pp. 274-279
-
-
Amoutzias, G.D.1
Robertson, D.L.2
Oliver, S.G.3
Bornberg-Bauer, E.4
-
83
-
-
0035798406
-
Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure
-
Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001) Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. J. Mol. Biol., 313, 903-919.
-
(2001)
J. Mol. Biol.
, vol.313
, pp. 903-919
-
-
Gough, J.1
Karplus, K.2
Hughey, R.3
Chothia, C.4
-
84
-
-
33646909100
-
Protein family expansions and biological complexity
-
Vogel, C. and Chothia, C. (2006) Protein family expansions and biological complexity. PLoS Comput. Biol., 2, e48.
-
(2006)
PLoS Comput. Biol.
, vol.2
-
-
Vogel, C.1
Chothia, C.2
-
85
-
-
26244442102
-
Modules, multidomain proteins and organismic complexity
-
Tordai, H., Nagy, A., Farkas, K., Banyai, L. and Patthy, L. (2005) Modules, multidomain proteins and organismic complexity. FEBS J., 272, 5064-5078.
-
(2005)
FEBS J.
, vol.272
, pp. 5064-5078
-
-
Tordai, H.1
Nagy, A.2
Farkas, K.3
Banyai, L.4
Patthy, L.5
-
86
-
-
0041828241
-
Scaling laws in the functional content of genomes
-
Van Nimwegen, E. (2003) Scaling laws in the functional content of genomes. Trends Genet., 19, 479-484.
-
(2003)
Trends Genet.
, vol.19
, pp. 479-484
-
-
Van Nimwegen, E.1
-
87
-
-
1042298811
-
Evolution of protein superfamilies and bacterial genome size
-
Ranea, J. A., Buchan, D. W., Thornton, J. M. and Orengo, C. A. (2004) Evolution of protein superfamilies and bacterial genome size. J. Mol. Biol., 336, 871-887.
-
(2004)
J. Mol. Biol.
, vol.336
, pp. 871-887
-
-
Ranea, J.A.1
Buchan, D.W.2
Thornton, J.M.3
Orengo, C.A.4
-
88
-
-
13144268590
-
Microeconomic principles explain an optimal genome size in bacteria
-
Ranea, J. A., Grant, A., Thornton, J. M. and Orengo, C. A. (2005) Microeconomic principles explain an optimal genome size in bacteria. Trends Genet., 21, 21-25.
-
(2005)
Trends Genet.
, vol.21
, pp. 21-25
-
-
Ranea, J.A.1
Grant, A.2
Thornton, J.M.3
Orengo, C.A.4
-
89
-
-
67649872627
-
Toolbox model of evolution of prokaryotic metabolic networks and their regulation
-
Maslov, S., Krishna, S., Pang, T. Y. and Sneppen, K. (2009) Toolbox model of evolution of prokaryotic metabolic networks and their regulation. Proc. Natl Acad. Sci. USA, 106, 9743-9748.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 9743-9748
-
-
Maslov, S.1
Krishna, S.2
Pang, T.Y.3
Sneppen, K.4
-
90
-
-
0037665941
-
Transcription regulation and environmental adaptation in bacteria
-
Cases, I., de Lorenzo, V. and Ouzounis, C. A. (2003) Transcription regulation and environmental adaptation in bacteria. Trends Microbiol., 11, 248-253.
-
(2003)
Trends Microbiol.
, vol.11
, pp. 248-253
-
-
Cases, I.1
De Lorenzo, V.2
Ouzounis, C.A.3
-
91
-
-
33745449162
-
Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast
-
Balaji, S., Babu, M. M., Iyer, L. M., Luscombe, N. M. and Aravind, L. (2006) Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast. J. Mol. Biol., 360, 213-227.
-
(2006)
J. Mol. Biol.
, vol.360
, pp. 213-227
-
-
Balaji, S.1
Babu, M.M.2
Iyer, L.M.3
Luscombe, N.M.4
Aravind, L.5
-
92
-
-
34249740942
-
A new paradigm for developmental biology
-
Mattick, J. S. (2007) A new paradigm for developmental biology. J. Exp. Biol., 210, 1526-1547.
-
(2007)
J. Exp. Biol.
, vol.210
, pp. 1526-1547
-
-
Mattick, J.S.1
-
93
-
-
44649172475
-
How much non-coding DNA do eukaryotes require?
-
Ahnert, S. E., Fink, T. M. and Zinovyev, A. (2008) How much non-coding DNA do eukaryotes require? J. Theor. Biol., 252, 587-592.
-
(2008)
J. Theor. Biol.
, vol.252
, pp. 587-592
-
-
Ahnert, S.E.1
Fink, T.M.2
Zinovyev, A.3
-
94
-
-
0037076278
-
Genome-wide identification of tissue-specific enhancers in the Ciona tadpole
-
Harafuji, N., Keys, D. N. and Levine, M. (2002) Genome-wide identification of tissue-specific enhancers in the Ciona tadpole. Proc. Natl Acad. Sci. USA, 99, 6802-6805.
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 6802-6805
-
-
Harafuji, N.1
Keys, D.N.2
Levine, M.3
-
96
-
-
10744227070
-
Control of pancreas and liver gene expression by HNF transcription factors
-
Odom, D. T., Zizlsperger, N., Gordon, D. B., Bell, G. W., Rinaldi, N. J., Murray, H. L., Volkert, T. L., Schreiber, J., Rolfe, P. A., Gifford, D. K. et al. (2004) Control of pancreas and liver gene expression by HNF transcription factors. Science, 303, 1378-1381.
-
(2004)
Science
, vol.303
, pp. 1378-1381
-
-
Odom, D.T.1
Zizlsperger, N.2
Gordon, D.B.3
Bell, G.W.4
Rinaldi, N.J.5
Murray, H.L.6
Volkert, T.L.7
Schreiber, J.8
Rolfe, P.A.9
Gifford, D.K.10
-
97
-
-
0035979735
-
Patterns of gene expression during Drosophila mesoderm development
-
Furlong, E. E., Andersen, E. C., Null, B., White, K. P. and Scott, M. P. (2001) Patterns of gene expression during Drosophila mesoderm development. Science, 293, 1629-1633.
-
(2001)
Science
, vol.293
, pp. 1629-1633
-
-
Furlong, E.E.1
Andersen, E.C.2
Null, B.3
White, K.P.4
Scott, M.P.5
-
98
-
-
17244377445
-
Alternative splicing of mouse transcription factors affects their DNA-binding domain architecture and is tissue specific
-
Taneri, B., Snyder, B., Novoradovsky, A. and Gaasterland, T. (2004) Alternative splicing of mouse transcription factors affects their DNA-binding domain architecture and is tissue specific. Genome Biol., 5, R75.
-
(2004)
Genome Biol.
, vol.5
-
-
Taneri, B.1
Snyder, B.2
Novoradovsky, A.3
Gaasterland, T.4
-
100
-
-
0037711251
-
Drug discovery with engineered zinc-finger proteins
-
Jamieson, A. C., Miller, J. C. and Pabo, C. O. (2003) Drug discovery with engineered zinc-finger proteins. Nat. Rev. Drug. Discov., 2, 361-368.
-
(2003)
Nat. Rev. Drug. Discov.
, vol.2
, pp. 361-368
-
-
Jamieson, A.C.1
Miller, J.C.2
Pabo, C.O.3
-
101
-
-
27744530147
-
Zinc finger nucleases: Custom-designed molecular scissors for genome engineering of plant and mammalian cells
-
Durai, S., Mani, M., Kandavelou, K., Wu, J., Porteus, M. H. and Chandrasegaran, S. (2005) Zinc finger nucleases: custom-designed molecular scissors for genome engineering of plant and mammalian cells. Nucleic Acids Res., 33, 5978-5990.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 5978-5990
-
-
Durai, S.1
Mani, M.2
Kandavelou, K.3
Wu, J.4
Porteus, M.H.5
Chandrasegaran, S.6
-
102
-
-
0037446851
-
Enhanced protein domain discovery by using language modeling techniques from speech recognition
-
Coin, L., Bateman, A. and Durbin, R. (2003) Enhanced protein domain discovery by using language modeling techniques from speech recognition. Proc. Natl Acad. Sci. USA, 100, 4516-4520.
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 4516-4520
-
-
Coin, L.1
Bateman, A.2
Durbin, R.3
-
103
-
-
2942576060
-
Enhanced protein domain discovery using taxonomy
-
Coin, L., Bateman, A. and Durbin, R. (2004) Enhanced protein domain discovery using taxonomy. BMC Bioinformatics, 5, 56.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 56
-
-
Coin, L.1
Bateman, A.2
Durbin, R.3
|