메뉴 건너뛰기




Volumn 7, Issue 1, 2007, Pages

Emergence and maintenance of functional modules in signaling pathways

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; EVOLUTION; MATHEMATICAL MODEL; MUTATION; PROTEIN DEPLETION; PROTEIN INTERACTION; RECEPTOR AFFINITY; SIGNAL TRANSDUCTION; SIMULATION; BIOLOGICAL MODEL; BIOLOGY; COMPUTER SIMULATION; MOLECULAR EVOLUTION; THEORETICAL MODEL;

EID: 38849129347     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-7-205     Document Type: Article
Times cited : (12)

References (37)
  • 1
    • 0033518234 scopus 로고    scopus 로고
    • From molecular to modular cell biology
    • 10.1038/35011540. 10591225
    • From molecular to modular cell biology. LH Hartwell JJ Hopfield S Leibler AW Murray, Nature 1999 402 6761 C47 C52 10.1038/35011540 10591225
    • (1999) Nature , vol.402 , Issue.6761
    • Hartwell, L.H.1    Hopfield, J.J.2    Leibler, S.3    Murray, A.W.4
  • 2
    • 0142059836 scopus 로고    scopus 로고
    • Protein complexes and functional modules in molecular networks
    • 10.1073/pnas.2032324100. 14517352
    • Protein complexes and functional modules in molecular networks. V Spirin LA Mirny, Proc Natl Acad Sci U S A 2003 100 21 12123 8 10.1073/pnas.2032324100 14517352
    • (2003) Proc Natl Acad Sci U S a , vol.100 , Issue.21 , pp. 12123-8
    • Spirin, V.1    Mirny, L.A.2
  • 3
    • 1542357674 scopus 로고    scopus 로고
    • Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data
    • 10.1073/pnas.0308661100. 14973197
    • Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data. A Tanay R Sharan M Kupiec R Shamir, Proc Natl Acad Sci U S A 2004 101 9 2981 2986 10.1073/pnas.0308661100 14973197
    • (2004) Proc Natl Acad Sci U S a , vol.101 , Issue.9 , pp. 2981-2986
    • Tanay, A.1    Sharan, R.2    Kupiec, M.3    Shamir, R.4
  • 5
    • 0037174670 scopus 로고    scopus 로고
    • Network motifs: Simple building blocks of complex networks
    • 10.1126/science.298.5594.824. 12399590
    • Network motifs: simple building blocks of complex networks. R Milo S Shen-Orr S Itzkovitz N Kashtan D Chklovskii U Alon, Science 2002 298 5594 824 827 10.1126/science.298.5594.824 12399590
    • (2002) Science , vol.298 , Issue.5594 , pp. 824-827
    • Milo, R.1    Shen-Orr, S.2    Itzkovitz, S.3    Kashtan, N.4    Chklovskii, D.5    Alon, U.6
  • 6
    • 0036578795 scopus 로고    scopus 로고
    • Network motifs in the transcriptional regulation network of Escherichia coli
    • 10.1038/ng881. 11967538
    • Network motifs in the transcriptional regulation network of Escherichia coli. SS Shen-Orr R Milo S Mangan U Alon, Nat Genet 2002 31 1 64 68 10.1038/ng881 11967538
    • (2002) Nat Genet , vol.31 , Issue.1 , pp. 64-68
    • Shen-Orr, S.S.1    Milo, R.2    Mangan, S.3    Alon, U.4
  • 7
    • 1542286745 scopus 로고    scopus 로고
    • Quantifying modularity in the evolution of biomolecular systems
    • 14993205. 10.1101/gr.1969504
    • Quantifying modularity in the evolution of biomolecular systems. B Snel MA Huynen, Genome Res 2004 14 3 391 397 14993205 10.1101/gr.1969504
    • (2004) Genome Res , vol.14 , Issue.3 , pp. 391-397
    • Snel, B.1    Huynen, M.A.2
  • 8
    • 33745020639 scopus 로고    scopus 로고
    • A metabolic network in the evolutionary context: Multiscale structure and modularity
    • 10.1073/pnas.0510258103. 16731630
    • A metabolic network in the evolutionary context: Multiscale structure and modularity. V Spirin MS Gelfand AA Mironov LA Mirny, Proc Natl Acad Sci U S A 2006 103 23 8774 8779 10.1073/pnas.0510258103 16731630
    • (2006) Proc Natl Acad Sci U S a , vol.103 , Issue.23 , pp. 8774-8779
    • Spirin, V.1    Gelfand, M.S.2    Mironov, A.A.3    Mirny, L.A.4
  • 9
    • 0142027814 scopus 로고    scopus 로고
    • Structure and function of the feed-forward loop network motif
    • 14530388. 10.1073/pnas.2133841100
    • Structure and function of the feed-forward loop network motif. S Mangan U Alon, Proc Natl Acad Sci USA 2003 100 21 11980 11985 14530388 10.1073/pnas.2133841100
    • (2003) Proc Natl Acad Sci USA , vol.100 , Issue.21 , pp. 11980-11985
    • Mangan, S.1    Alon, U.2
  • 10
    • 0015514970 scopus 로고
    • Will a large complex system be stable?
    • 10.1038/238413a0. 4559589
    • Will a large complex system be stable? RM May, Nature 1972 238 5364 413 414 10.1038/238413a0 4559589
    • (1972) Nature , vol.238 , Issue.5364 , pp. 413-414
    • May, R.M.1
  • 11
    • 2942677286 scopus 로고    scopus 로고
    • Networks, dynamics, and modularity
    • 10.1103/PhysRevLett.92.188701. 15169539
    • Networks, dynamics, and modularity. EA Variano JH McCoy H Lipson, Phys Rev Lett 2004 92 18 188701 10.1103/PhysRevLett.92.188701 15169539
    • (2004) Phys Rev Lett , vol.92 , Issue.18 , pp. 188701
    • Variano, E.A.1    McCoy, J.H.2    Lipson, H.3
  • 13
    • 25444448797 scopus 로고    scopus 로고
    • Spontaneous evolution of modularity and network motifs
    • 16174729. 10.1073/pnas.0503610102
    • Spontaneous evolution of modularity and network motifs. N Kashtan U Alon, Proc Natl Acad Sci USA 2005 102 39 13773 13778 16174729 10.1073/pnas.0503610102
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.39 , pp. 13773-13778
    • Kashtan, N.1    Alon, U.2
  • 14
    • 2942689401 scopus 로고    scopus 로고
    • Evolution of bacterial diversity and the origins of modularity
    • 10.1016/j.resmic.2004.01.011. 15207869
    • Evolution of bacterial diversity and the origins of modularity. PB Rainey TF Cooper, Res Microbiol 2004 155 5 370 375 10.1016/j.resmic.2004.01.011 15207869
    • (2004) Res Microbiol , vol.155 , Issue.5 , pp. 370-375
    • Rainey, P.B.1    Cooper, T.F.2
  • 15
    • 20444419818 scopus 로고    scopus 로고
    • The origin of subfunctions and modular gene regulation
    • 15781713. 10.1534/genetics.104.027607
    • The origin of subfunctions and modular gene regulation. A Force WA Cresko FB Pickett SR Proulx C Amemiya M Lynch, Genetics 2005 170 1 433 446 15781713 10.1534/genetics.104.027607
    • (2005) Genetics , vol.170 , Issue.1 , pp. 433-446
    • Force, A.1    Cresko, W.A.2    Pickett, F.B.3    Proulx, S.R.4    Amemiya, C.5    Lynch, M.6
  • 16
    • 0038752617 scopus 로고    scopus 로고
    • Computational design of receptor and sensor proteins with novel functions
    • 10.1038/nature01556. 12736688
    • Computational design of receptor and sensor proteins with novel functions. LL Looger MA Dwyer JJ Smith HW Hellinga, Nature 2003 423 6936 185 190 10.1038/nature01556 12736688
    • (2003) Nature , vol.423 , Issue.6936 , pp. 185-190
    • Looger, L.L.1    Dwyer, M.A.2    Smith, J.J.3    Hellinga, H.W.4
  • 17
    • 17044434366 scopus 로고    scopus 로고
    • Molecular basis for promoter selectivity of the transcriptional activator OmpR of Escherichia coli: Isolation of mutants that can activate the non-cognate kdpABC promoter
    • 15713883
    • Molecular basis for promoter selectivity of the transcriptional activator OmpR of Escherichia coli: isolation of mutants that can activate the non-cognate kdpABC promoter. K Ohashi T Yamashino T Mizuno, J Biochem (Tokyo) 2005 137 1 51 59 15713883
    • (2005) J Biochem (Tokyo) , vol.137 , Issue.1 , pp. 51-59
    • Ohashi, K.1    Yamashino, T.2    Mizuno, T.3
  • 18
    • 33750805181 scopus 로고    scopus 로고
    • Evolution of complexity in signaling pathways
    • 17060629. 10.1073/pnas.0604449103
    • Evolution of complexity in signaling pathways. OS Soyer S Bonhoeffer, Proc Natl Acad Sci USA 2006 103 44 16337 16342 17060629 10.1073/pnas.0604449103
    • (2006) Proc Natl Acad Sci USA , vol.103 , Issue.44 , pp. 16337-16342
    • Soyer, O.S.1    Bonhoeffer, S.2
  • 19
    • 23844519964 scopus 로고    scopus 로고
    • Circuit topology and the evolution of robustness in two-gene circadian oscillators
    • 16087882. 10.1073/pnas.0501094102
    • Circuit topology and the evolution of robustness in two-gene circadian oscillators. A Wagner, Proc Natl Acad Sci USA 2005 102 33 11775 11780 16087882 10.1073/pnas.0501094102
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.33 , pp. 11775-11780
    • Wagner, A.1
  • 20
    • 33751429178 scopus 로고    scopus 로고
    • The evolution of two-component systems in bacteria reveals different strategies for niche adaptation
    • 17083272. 10.1371/journal.pcbi.0020143
    • The evolution of two-component systems in bacteria reveals different strategies for niche adaptation. E Alm K Huang A Arkin, PLoS Comput Biol 2006 2 11 e143 17083272 10.1371/journal.pcbi.0020143
    • (2006) PLoS Comput Biol , vol.2 , Issue.11 , pp. 143
    • Alm, E.1    Huang, K.2    Arkin, A.3
  • 21
    • 12544258487 scopus 로고    scopus 로고
    • Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli
    • 10.1074/jbc.M410104200. 15522865
    • Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli. K Yamamoto K Hirao T Oshima H Aiba R Utsumi A Ishihama, J Biol Chem 2005 280 2 1448 1456 10.1074/jbc.M410104200 15522865
    • (2005) J Biol Chem , vol.280 , Issue.2 , pp. 1448-1456
    • Yamamoto, K.1    Hirao, K.2    Oshima, T.3    Aiba, H.4    Utsumi, R.5    Ishihama, A.6
  • 22
    • 0032555135 scopus 로고    scopus 로고
    • Evolvability
    • 9671692. 10.1073/pnas.95.15.8420
    • Evolvability. M Kirschner J Gerhart, Proc Natl Acad Sci USA 1998 95 15 8420 8427 9671692 10.1073/pnas.95.15.8420
    • (1998) Proc Natl Acad Sci USA , vol.95 , Issue.15 , pp. 8420-8427
    • Kirschner, M.1    Gerhart, J.2
  • 23
    • 0021277007 scopus 로고
    • Evolution of catalytic proteins or on the origin of enzyme species by means of natural selection
    • 10.1007/BF02101984. 6429341
    • Evolution of catalytic proteins or on the origin of enzyme species by means of natural selection. H Kacser R Beeby, J Mol Evol 1984 20 1 38 51 10.1007/BF02101984 6429341
    • (1984) J Mol Evol , vol.20 , Issue.1 , pp. 38-51
    • Kacser, H.1    Beeby, R.2
  • 24
    • 26444481955 scopus 로고    scopus 로고
    • Two-component signal transduction pathways regulating growth and cell cycle progression in a bacterium: A system-level analysis
    • 16176121. 10.1371/journal.pbio.0030334
    • Two-component signal transduction pathways regulating growth and cell cycle progression in a bacterium: a system-level analysis. JM Skerker MS Prasol BS Perchuk EG Biondi MT Laub, PLoS Biol 2005 3 10 e334 16176121 10.1371/journal.pbio.0030334
    • (2005) PLoS Biol , vol.3 , Issue.10 , pp. 334
    • Skerker, J.M.1    Prasol, M.S.2    Perchuk, B.S.3    Biondi, E.G.4    Laub, M.T.5
  • 25
    • 14544270984 scopus 로고    scopus 로고
    • Cyclin specificity in the phosphorylation of cyclindependent kinase substrates
    • 10.1038/nature03329. 15744308
    • Cyclin specificity in the phosphorylation of cyclindependent kinase substrates. M Loog DO Morgan, Nature 2005 434 7029 104 108 10.1038/nature03329 15744308
    • (2005) Nature , vol.434 , Issue.7029 , pp. 104-108
    • Loog, M.1    Morgan, D.O.2
  • 26
    • 10944251582 scopus 로고    scopus 로고
    • Principles of MAP kinase signaling specificity in Saccharomyces cerevisiae
    • 10.1146/annurev.genet.39.073003.112634. 15568991
    • Principles of MAP kinase signaling specificity in Saccharomyces cerevisiae. MA Schwartz HD Madhani, Annu Rev Genet 2004 38 725 748 10.1146/annurev.genet.39.073003.112634 15568991
    • (2004) Annu Rev Genet , vol.38 , pp. 725-748
    • Schwartz, M.A.1    Madhani, H.D.2
  • 27
    • 0037470041 scopus 로고    scopus 로고
    • A spatial focusing model for G protein signals. Regulator of G protein signaling (RGS) protien-mediated kinetic scaffolding
    • 10.1074/jbc.M208819200. 12446706
    • A spatial focusing model for G protein signals. Regulator of G protein signaling (RGS) protien-mediated kinetic scaffolding. H Zhong SM Wade PJ Woolf JJ Linderman JR Traynor RR Neubig, J Biol Chem 2003 278 9 7278 7284 10.1074/jbc.M208819200 12446706
    • (2003) J Biol Chem , vol.278 , Issue.9 , pp. 7278-7284
    • Zhong, H.1    Wade, S.M.2    Woolf, P.J.3    Linderman, J.J.4    Traynor, J.R.5    Neubig, R.R.6
  • 28
    • 0642285840 scopus 로고    scopus 로고
    • Preferential attachment in the protein network evolution
    • 10.1103/PhysRevLett.91.138701. 14525344
    • Preferential attachment in the protein network evolution. E Eisenberg EY Levanon, Phys Rev Lett 2003 91 13 138701 10.1103/PhysRevLett.91.138701 14525344
    • (2003) Phys Rev Lett , vol.91 , Issue.13 , pp. 138701
    • Eisenberg, E.1    Levanon, E.Y.2
  • 29
    • 0035051919 scopus 로고    scopus 로고
    • Phenotypic and dynamical transitions in model genetic networks. I. Emergence of patterns and genotype-phenotype relationships
    • 10.1046/j.1525-142x.2001.003002084.x. 11341677
    • Phenotypic and dynamical transitions in model genetic networks. I. Emergence of patterns and genotype-phenotype relationships. I Salazar-Ciudad SA Newman RV Sole, Evol Dev 2001 3 2 84 94 10.1046/j.1525-142x.2001.003002084.x 11341677
    • (2001) Evol Dev , vol.3 , Issue.2 , pp. 84-94
    • Salazar-Ciudad, I.1    Newman, S.A.2    Sole, R.V.3
  • 30
    • 0037423828 scopus 로고    scopus 로고
    • How the global structure of protein interaction networks evolves
    • 10.1098/rspb.2002.2269. 12641899
    • How the global structure of protein interaction networks evolves. A Wagner, Proc Biol Sci 2003 270 1514 457 466 10.1098/rspb.2002.2269 12641899
    • (2003) Proc Biol Sci , vol.270 , Issue.1514 , pp. 457-466
    • Wagner, A.1
  • 31
    • 0042154192 scopus 로고    scopus 로고
    • Evolutionary capacitance as a general feature of complex gene networks
    • 10.1038/nature01765. 12891357
    • Evolutionary capacitance as a general feature of complex gene networks. A Bergman ML Siegal, Nature 2003 424 6948 549 552 10.1038/nature01765 12891357
    • (2003) Nature , vol.424 , Issue.6948 , pp. 549-552
    • Bergman, A.1    Siegal, M.L.2
  • 32
    • 0033531783 scopus 로고    scopus 로고
    • Population and quantitative genetics of regulatory networks
    • 10.1006/jtbi.1998.0872. 10089143
    • Population and quantitative genetics of regulatory networks. SA Frank, J Theor Biol 1999 197 3 281 294 10.1006/jtbi.1998.0872 10089143
    • (1999) J Theor Biol , vol.197 , Issue.3 , pp. 281-294
    • Frank, S.A.1
  • 33
    • 0032851841 scopus 로고    scopus 로고
    • Emergence of homeostasis and "noise imprinting" in an evolution model
    • 10485897. 10.1073/pnas.96.19.10746
    • Emergence of homeostasis and "noise imprinting" in an evolution model. MD Stern, Proc Natl Acad Sci USA 1999 96 19 10746 10751 10485897 10.1073/pnas.96.19.10746
    • (1999) Proc Natl Acad Sci USA , vol.96 , Issue.19 , pp. 10746-10751
    • Stern, M.D.1
  • 34
    • 22744439567 scopus 로고    scopus 로고
    • The evolution of connectivity in metabolic networks
    • 16000019. 10.1371/journal.pbio.0030228
    • The evolution of connectivity in metabolic networks. T Pfeiffer OS Soyer S Bonhoeffer, PLoS Biol 2005 3 7 e228 16000019 10.1371/journal.pbio.0030228
    • (2005) PLoS Biol , vol.3 , Issue.7 , pp. 228
    • Pfeiffer, T.1    Soyer, O.S.2    Bonhoeffer, S.3
  • 35
    • 33745739006 scopus 로고    scopus 로고
    • Simulating the evolution of signal transduction pathways
    • 10.1016/j.jtbi.2005.11.024. 16403533
    • Simulating the evolution of signal transduction pathways. OS Soyer T Pfeiffer S Bonhoeffer, J Theor Biol 2006 241 2 223 232 10.1016/j.jtbi.2005.11. 024 16403533
    • (2006) J Theor Biol , vol.241 , Issue.2 , pp. 223-232
    • Soyer, O.S.1    Pfeiffer, T.2    Bonhoeffer, S.3
  • 36
    • 29244446788 scopus 로고    scopus 로고
    • Signal transduction networks: Topology, response and biochemical processes
    • 16045939
    • Signal transduction networks: topology, response and biochemical processes. OS Soyer M Salathe S Bonhoeffer, J Theor Biol 2006 238 2 416 425 16045939
    • (2006) J Theor Biol , vol.238 , Issue.2 , pp. 416-425
    • Soyer, O.S.1    Salathe, M.2    Bonhoeffer, S.3
  • 37
    • 0033791468 scopus 로고    scopus 로고
    • Two-component signal transduction
    • 10.1146/annurev.biochem.69.1.183. 10966457
    • Two-component signal transduction. AM Stock VL Robinson PN Goudreau, Annu Rev Biochem 2000 69 183 215 10.1146/annurev.biochem.69.1.183 10966457
    • (2000) Annu Rev Biochem , vol.69 , pp. 183-215
    • Stock, A.M.1    Robinson, V.L.2    Goudreau, P.N.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.