The regulatory interactions between transcription factors and their target genes can be conceptualised as a directed graph. At a global level, these regulatory networks display a scale-free topology, indicating the presence of regulatory hubs. At a local level, substructures such as motifs and modules can be discerned in these networks. Despite the general organisational similarity of networks across the phylogenetic spectrum, there are interesting qualitative differences among the network components, such as the transcription factors. Although the DNA-binding domains of the transcription factors encoded by a given organism are drawn from a small set of ancient conserved superfamilies, their relative abundance often shows dramatic variation among different phylogenetic groups. Large portions of these networks appear to have evolved through extensive duplication of transcription factors and targets, often with inheritance of regulatory interactions from the ancestral gene. Interactions are conserved to varying degrees among genomes. Insights from the structure and evolution of these networks can be translated into predictions and used for engineering of the regulatory networks of different organisms.
机构:
Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USAUniv Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Abrahamsen, MS
;
Templeton, TJ
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Templeton, TJ
;
Enomoto, S
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Enomoto, S
;
Abrahante, JE
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Abrahante, JE
;
Zhu, G
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Zhu, G
;
Lancto, CA
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Lancto, CA
;
Deng, MQ
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Deng, MQ
;
Liu, C
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Liu, C
;
Widmer, G
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Widmer, G
;
Tzipori, S
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Tzipori, S
;
Buck, GA
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Buck, GA
;
Xu, P
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Xu, P
;
Bankier, AT
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Bankier, AT
;
Dear, PH
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Dear, PH
;
Konfortov, BA
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Konfortov, BA
;
Spriggs, HF
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Spriggs, HF
;
Iyer, L
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Iyer, L
;
Anantharaman, V
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Anantharaman, V
;
Aravind, L
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Aravind, L
;
Kapur, V
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Bozdech, Z
;
Llinás, M
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h-index: 0
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Llinás, M
;
Pulliam, BL
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机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Pulliam, BL
;
Wong, ED
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机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Wong, ED
;
Zhu, JC
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机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Zhu, JC
;
DeRisi, JL
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h-index: 0
机构:
Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USAUniv Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
机构:
European Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, EnglandEuropean Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, England
Coulson, RMR
;
Enright, AJ
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机构:
European Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, EnglandEuropean Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, England
Enright, AJ
;
Ouzounis, CA
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European Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, EnglandEuropean Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, England
机构:
Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USAUniv Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Abrahamsen, MS
;
Templeton, TJ
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Templeton, TJ
;
Enomoto, S
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Enomoto, S
;
Abrahante, JE
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Abrahante, JE
;
Zhu, G
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Zhu, G
;
Lancto, CA
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Lancto, CA
;
Deng, MQ
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Deng, MQ
;
Liu, C
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机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Liu, C
;
Widmer, G
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Widmer, G
;
Tzipori, S
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Tzipori, S
;
Buck, GA
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Buck, GA
;
Xu, P
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Xu, P
;
Bankier, AT
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Bankier, AT
;
Dear, PH
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Dear, PH
;
Konfortov, BA
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h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Konfortov, BA
;
Spriggs, HF
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Spriggs, HF
;
Iyer, L
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Iyer, L
;
Anantharaman, V
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Anantharaman, V
;
Aravind, L
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
Aravind, L
;
Kapur, V
论文数: 0引用数: 0
h-index: 0
机构:Univ Minnesota, Coll Vet Med, Dept Vet & Biomed Sci, St Paul, MN 55108 USA
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Bozdech, Z
;
Llinás, M
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Llinás, M
;
Pulliam, BL
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Pulliam, BL
;
Wong, ED
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Wong, ED
;
Zhu, JC
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
Zhu, JC
;
DeRisi, JL
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USAUniv Calif San Francisco, Dept Biochem & Biophys, San Francisco, CA 94143 USA
机构:
European Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, EnglandEuropean Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, England
Coulson, RMR
;
Enright, AJ
论文数: 0引用数: 0
h-index: 0
机构:
European Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, EnglandEuropean Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, England
Enright, AJ
;
Ouzounis, CA
论文数: 0引用数: 0
h-index: 0
机构:
European Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, EnglandEuropean Bioinformat Inst, EMBL Cambridge Outstn, Res Programme, Computat Genom Grp, Cambridge CB10 1SD, England