메뉴 건너뛰기




Volumn 5, Issue 2, 2004, Pages 101-113

Network biology: Understanding the cell's functional organization

Author keywords

[No Author keywords available]

Indexed keywords

COENZYME A; GUANOSINE TRIPHOSPHATE; NICOTINAMIDE ADENINE DINUCLEOTIDE; RNA;

EID: 0742305866     PISSN: 14710056     EISSN: None     Source Type: Journal    
DOI: 10.1038/nrg1272     Document Type: Review
Times cited : (6341)

References (106)
  • 1
    • 0033518234 scopus 로고    scopus 로고
    • From molecular to modular cell biology
    • Hartwell, L. H., Hopfield, J. J., Leibler, S. & Murray, A. W. From molecular to modular cell biology. Nature 402, C47-C52 (1999). This influential concept paper strongly argues for the modular organization of biological functions.
    • (1999) Nature , vol.402
    • Hartwell, L.H.1    Hopfield, J.J.2    Leibler, S.3    Murray, A.W.4
  • 2
    • 0037079012 scopus 로고    scopus 로고
    • Engineered gene circuits
    • Hasty, J., McMillen, D. & Collins, J. J. Engineered gene circuits. Nature 420, 224-230 (2002).
    • (2002) Nature , vol.420 , pp. 224-230
    • Hasty, J.1    McMillen, D.2    Collins, J.J.3
  • 3
    • 0037079054 scopus 로고    scopus 로고
    • Computational systems biology
    • Kitano, H. Computational systems biology. Nature 420, 206-210 (2002).
    • (2002) Nature , vol.420 , pp. 206-210
    • Kitano, H.1
  • 4
    • 0037079014 scopus 로고    scopus 로고
    • The structure of the protein universe and genome evolution
    • Koonin, E. V., Wolf, Y. I. & Karev, G. P. The structure of the protein universe and genome evolution. Nature 420, 218-223 (2002).
    • (2002) Nature , vol.420 , pp. 218-223
    • Koonin, E.V.1    Wolf, Y.I.2    Karev, G.P.3
  • 5
    • 0037174638 scopus 로고    scopus 로고
    • Life's complexity pyramid
    • Oltvai, Z. N. & Barabási, A.-L. Life's complexity pyramid. Science 298, 763-764 (2002).
    • (2002) Science , vol.298 , pp. 763-764
    • Oltvai, Z.N.1    Barabási, A.-L.2
  • 7
    • 0141596113 scopus 로고    scopus 로고
    • Molecular networks: The top-down view
    • Bray, D. Molecular networks: the top-down view. Science 301, 1864-1865 (2003).
    • (2003) Science , vol.301 , pp. 1864-1865
    • Bray, D.1
  • 8
    • 0141484562 scopus 로고    scopus 로고
    • Biological networks: The tinkerer as an engineer
    • Alon, U. Biological networks: the tinkerer as an engineer. Science 301, 1866-1867 (2003).
    • (2003) Science , vol.301 , pp. 1866-1867
    • Alon, U.1
  • 9
    • 0036013593 scopus 로고    scopus 로고
    • Statistical mechanics of complex networks
    • Albert, R. & Barabási, A.-L. Statistical mechanics of complex networks. Rev. Mod. Phys. 74, 47-97 (2002).
    • (2002) Rev. Mod. Phys. , vol.74 , pp. 47-97
    • Albert, R.1    Barabási, A.-L.2
  • 12
    • 0035826155 scopus 로고    scopus 로고
    • Exploring complex networks
    • Strogatz, S. H. Exploring complex networks. Nature 410, 268-276 (2001).
    • (2001) Nature , vol.410 , pp. 268-276
    • Strogatz, S.H.1
  • 15
    • 0038483826 scopus 로고    scopus 로고
    • Emergence of scaling in random networks
    • Barabási, A.-L. & Albert, R. Emergence of scaling in random networks. Science 286, 509-512 (1999). This paper introduced the concept of scale-free networks and proposed a mechanism for their emergence.
    • (1999) Science , vol.286 , pp. 509-512
    • Barabási, A.-L.1    Albert, R.2
  • 17
    • 0035823264 scopus 로고    scopus 로고
    • The small world inside large metabolic networks
    • Wagner, A. & Fell, D. A. The small world inside large metabolic networks. Proc. R. Soc. Lond. B 268, 1803-1810 (2001). References 16 and 17 provide the first report on the large-scale organization of metabolic networks, showing its scale-free nature.
    • (2001) Proc. R. Soc. Lond. B , vol.268 , pp. 1803-1810
    • Wagner, A.1    Fell, D.A.2
  • 18
    • 0035799707 scopus 로고    scopus 로고
    • Lethality and centrality in protein networks
    • Jeong, H., Mason, S. P., Barabási, A.-L. & Oltvai, Z. N. Lethality and centrality in protein networks. Nature 411, 41-42 (2001).
    • (2001) Nature , vol.411 , pp. 41-42
    • Jeong, H.1    Mason, S.P.2    Barabási, A.-L.3    Oltvai, Z.N.4
  • 19
    • 0034943378 scopus 로고    scopus 로고
    • The yeast protein interaction network evolves rapidly and contains few redundant duplicate genes
    • Wagner, A. The yeast protein interaction network evolves rapidly and contains few redundant duplicate genes. Mol. Biol. Evol. 18, 1283-1292 (2001).
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 1283-1292
    • Wagner, A.1
  • 20
    • 0345600247 scopus 로고    scopus 로고
    • A protein interaction map of Drosophila melanogaster
    • Giot, L. et al. A protein interaction map of Drosophila melanogaster. Science 302, 1727-1736 (2003).
    • (2003) Science , vol.302 , pp. 1727-1736
    • Giot, L.1
  • 21
    • 9144264169 scopus 로고    scopus 로고
    • A map of the interactome network of the metazoan, C. elegans
    • Jan (doi:10.1126/science.1091403)
    • Li, S. et al. A map of the interactome network of the metazoan, C. elegans. Science 2 Jan 2004 (doi:10.1126/science.1091403)
    • (2004) Science , vol.2
    • Li, S.1
  • 22
    • 1842580761 scopus 로고    scopus 로고
    • Functional and topological characterization of protein interaction networks
    • in the press
    • Yook, S.-H., Oltvai, Z. N. & Barabási, A.-L. Functional and topological characterization of protein interaction networks. Proteomics (in the press).
    • Proteomics
    • Yook, S.-H.1    Oltvai, Z.N.2    Barabási, A.-L.3
  • 23
    • 0034628508 scopus 로고    scopus 로고
    • A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
    • Uetz, P. et al. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403, 623-627 (2000).
    • (2000) Nature , vol.403 , pp. 623-627
    • Uetz, P.1
  • 24
    • 0035836765 scopus 로고    scopus 로고
    • A comprehensive two-hybrid analysis to explore the yeast protein interactome
    • Ito, T. et al. A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl Acad. Sci. USA 98, 4569-4574 (2001).
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 4569-4574
    • Ito, T.1
  • 25
    • 0036006175 scopus 로고    scopus 로고
    • Wrestling with pleiotropy: Genomic and topological analysis of the yeast gene expression network
    • Featherstone, D. E. & Broadie, K. Wrestling with pleiotropy: genomic and topological analysis of the yeast gene expression network. Bioessays 24, 267-274 (2002).
    • (2002) Bioessays , vol.24 , pp. 267-274
    • Featherstone, D.E.1    Broadie, K.2
  • 26
    • 13744265233 scopus 로고    scopus 로고
    • Extreme self-organization in networks constructed from gene expression data
    • Agrawal, H. Extreme self-organization in networks constructed from gene expression data. Phys. Rev. Lett. 89, 268702 (2002).
    • (2002) Phys. Rev. Lett. , vol.89 , pp. 268702
    • Agrawal, H.1
  • 27
    • 0034887573 scopus 로고    scopus 로고
    • Scale-free behavior in protein domain networks
    • Wuchty, S. Scale-free behavior in protein domain networks. Mol. Biol. Evol. 18, 1694-1702 (2001).
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 1694-1702
    • Wuchty, S.1
  • 29
    • 0036578795 scopus 로고    scopus 로고
    • Network motifs in the transcriptional regulation network of Escherichia coli
    • Shen-Orr, S. S., Milo, R., Mangan, S. & Alon, U. Network motifs in the transcriptional regulation network of Escherichia coli. Nature Genet. 31, 64-68 (2002).
    • (2002) Nature Genet. , vol.31 , pp. 64-68
    • Shen-Orr, S.S.1    Milo, R.2    Mangan, S.3    Alon, U.4
  • 30
    • 0037174670 scopus 로고    scopus 로고
    • Network motifs: Simple building blocks of complex networks
    • Milo, R., Shen-Orr, S. S., Itzkovitz, S., Kashtan, N. & Alon, U. Network motifs: simple building blocks of complex networks. Science 298, 824-827 (2002). References 29 and 30 introduce the concept of motifs in biological and non-biological networks.
    • (2002) Science , vol.298 , pp. 824-827
    • Milo, R.1    Shen-Orr, S.S.2    Itzkovitz, S.3    Kashtan, N.4    Alon, U.5
  • 31
  • 32
    • 0002687371 scopus 로고
    • The small world problem
    • Milgram, S. The small world problem. Psychol. Today 2, 60 (1967).
    • (1967) Psychol. Today , vol.2 , pp. 60
    • Milgram, S.1
  • 33
    • 0032482432 scopus 로고    scopus 로고
    • Collective dynamics of 'small-world' networks
    • Watts, D. J. & Strogatz, S. H. Collective dynamics of 'small-world' networks. Nature 393, 440-442 (1998).
    • (1998) Nature , vol.393 , pp. 440-442
    • Watts, D.J.1    Strogatz, S.H.2
  • 34
    • 0037058980 scopus 로고    scopus 로고
    • The average distances in random graphs with given expected degrees
    • Chung, F. & Lu, L. The average distances in random graphs with given expected degrees. Proc. Natl Acad. Sci. USA 99, 15879-15882 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 15879-15882
    • Chung, F.1    Lu, L.2
  • 35
    • 0037423295 scopus 로고    scopus 로고
    • Scale-free networks are ultra small
    • Cohen, R. & Havlin, S. Scale-free networks are ultra small. Phys. Rev. Lett. 90, 058701 (2003).
    • (2003) Phys. Rev. Lett. , vol.90 , pp. 058701
    • Cohen, R.1    Havlin, S.2
  • 36
    • 0037012880 scopus 로고    scopus 로고
    • Specificity and stability in topology of protein networks
    • Maslov, S. & Sneppen, K. Specificity and stability in topology of protein networks. Science 296, 910-913 (2002). This paper reports that in protein interaction networks the highly connected nodes tend to link to less connected proteins, which is the so-called disassortative property.
    • (2002) Science , vol.296 , pp. 910-913
    • Maslov, S.1    Sneppen, K.2
  • 38
    • 18744389789 scopus 로고    scopus 로고
    • Assortative mixing in networks
    • Newman, M. E. J. Assortative mixing in networks. Phys. Rev. Lett. 89, 208701 (2002).
    • (2002) Phys. Rev. Lett. , vol.89 , pp. 208701
    • Newman, M.E.J.1
  • 39
    • 0034777716 scopus 로고    scopus 로고
    • Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome
    • Rzhetsky, A. & Gomez, S. M. Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome. Bioinformatics 17, 988-996 (2001).
    • (2001) Bioinformatics , vol.17 , pp. 988-996
    • Rzhetsky, A.1    Gomez, S.M.2
  • 40
    • 0035798398 scopus 로고    scopus 로고
    • Protein family and fold occurrence in genomes: Power-law behaviour and evolutionary model
    • Qian, J., Luscombe, N. M. & Gerstein, M. Protein family and fold occurrence in genomes: power-law behaviour and evolutionary model. J. Mol. Biol. 313, 673-681 (2001).
    • (2001) J. Mol. Biol. , vol.313 , pp. 673-681
    • Qian, J.1    Luscombe, N.M.2    Gerstein, M.3
  • 41
    • 0036856356 scopus 로고    scopus 로고
    • A duplication growth model of gene expression networks
    • Bhan, A., Galas, D. J. & Dewey, T. G. A duplication growth model of gene expression networks. Bionformatics 18, 1486-1493 (2002).
    • (2002) Bionformatics , vol.18 , pp. 1486-1493
    • Bhan, A.1    Galas, D.J.2    Dewey, T.G.3
  • 42
    • 0037460091 scopus 로고    scopus 로고
    • Evolving protein interaction networks through gene duplication
    • Pastor-Satorras, R., Smith, E. & Sole, R. Evolving protein interaction networks through gene duplication. J. Theor. Biol. 222, 199-210 (2003).
    • (2003) J. Theor. Biol. , vol.222 , pp. 199-210
    • Pastor-Satorras, R.1    Smith, E.2    Sole, R.3
  • 45
    • 0037423828 scopus 로고    scopus 로고
    • How the global structure of protein interaction networks evolves
    • Wagner, A. How the global structure of protein interaction networks evolves. Proc. R. Soc. Lond. B 270, 457-466 (2003).
    • (2003) Proc. R. Soc. Lond. B , vol.270 , pp. 457-466
    • Wagner, A.1
  • 46
    • 0642285840 scopus 로고    scopus 로고
    • Preferential attachment in the protein network evolution
    • Eisenberg, E. & Levanon, E. Y. Preferential attachment in the protein network evolution. Phys. Rev. Lett. 91, 138701 (2003).
    • (2003) Phys. Rev. Lett. , vol.91 , pp. 138701
    • Eisenberg, E.1    Levanon, E.Y.2
  • 48
    • 0032489015 scopus 로고    scopus 로고
    • The cell as a collection of protein machines: Preparing the next generation of molecular biologists
    • Alberts, B. The cell as a collection of protein machines: preparing the next generation of molecular biologists. Cell 92, 291-294 (1998).
    • (1998) Cell , vol.92 , pp. 291-294
    • Alberts, B.1
  • 49
    • 17944372930 scopus 로고    scopus 로고
    • Serial regulation of transcriptional regulators in the yeast cell cycle
    • Simon, I. et al. Serial regulation of transcriptional regulators in the yeast cell cycle. Cell 106, 697-708 (2001).
    • (2001) Cell , vol.106 , pp. 697-708
    • Simon, I.1
  • 50
    • 0036905483 scopus 로고    scopus 로고
    • The dynamics of cell cycle regulation
    • Tyson, J. J., Csikasz-Nagy, A. & Novak, B. The dynamics of cell cycle regulation. Bioessays 24, 1095-1109 (2002).
    • (2002) Bioessays , vol.24 , pp. 1095-1109
    • Tyson, J.J.1    Csikasz-Nagy, A.2    Novak, B.3
  • 51
    • 0141868933 scopus 로고    scopus 로고
    • A bacterial cell-cycle regulatory network operating in time and space
    • McAdams, H. H. & Shapiro, L. A bacterial cell-cycle regulatory network operating in time and space. Science 301, 1874-1877 (2003).
    • (2003) Science , vol.301 , pp. 1874-1877
    • McAdams, H.H.1    Shapiro, L.2
  • 52
    • 0037047611 scopus 로고    scopus 로고
    • MAP kinase phosphatase as a locus of flexibility in a mitogen-activated protein kinase signaling network
    • Bhalla, U. S., Ram, P. T. & Iyengar, R. MAP kinase phosphatase as a locus of flexibility in a mitogen-activated protein kinase signaling network. Science 297, 1018-1023 (2002).
    • (2002) Science , vol.297 , pp. 1018-1023
    • Bhalla, U.S.1    Ram, P.T.2    Iyengar, R.3
  • 53
    • 0037199968 scopus 로고    scopus 로고
    • Hierarchical organization of modularity in metabolic networks
    • Ravasz, E., Somera, A. L., Mongru, D. A., Oltvai, Z. N. & Barabási, A.-L. Hierarchical organization of modularity in metabolic networks. Science 297, 1551-1555 (2002). This paper introduced the concept of hierarchical networks, specifically in the context of metabolism.
    • (2002) Science , vol.297 , pp. 1551-1555
    • Ravasz, E.1    Somera, A.L.2    Mongru, D.A.3    Oltvai, Z.N.4    Barabási, A.-L.5
  • 55
    • 0141484611 scopus 로고    scopus 로고
    • Evolutionary conservation of motif constituents within the yeast protein interaction network
    • Wuchty, S., Oltvai, Z. N. & Barabási, A.-L. Evolutionary conservation of motif constituents within the yeast protein interaction network. Nature Genet. 35, 176-179 (2003).
    • (2003) Nature Genet. , vol.35 , pp. 176-179
    • Wuchty, S.1    Oltvai, Z.N.2    Barabási, A.-L.3
  • 56
    • 0037743679 scopus 로고    scopus 로고
    • Convergent evolution of gene circuits
    • Conant, G. C. & Wagner, A. Convergent evolution of gene circuits. Nature Genet. 34, 264-246 (2003).
    • (2003) Nature Genet. , vol.34 , pp. 264-246
    • Conant, G.C.1    Wagner, A.2
  • 57
    • 0344824373 scopus 로고    scopus 로고
    • Developmental gene regulatory network architecture across 500 million years of echinoderm evolution
    • Hinman, V.F., Nguyen, A. T., Cameron, R. A. & Davidson, E. H. Developmental gene regulatory network architecture across 500 million years of echinoderm evolution. Proc. Natl Acad. Sci. USA 100, 13356-13361 (2003).
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 13356-13361
    • Hinman, V.F.1    Nguyen, A.T.2    Cameron, R.A.3    Davidson, E.H.4
  • 59
    • 0036188159 scopus 로고    scopus 로고
    • Exploring the pathway structure of metabolism: Decomposition into subnetworks and application to Mycoplasma pneumoniae
    • Schuster, S., Pfeiffer, T., Moldenhauer, F., Koch, I. & Dandekar, T. Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae. Bionformatics. 18, 351-361 (2002).
    • (2002) Bionformatics , vol.18 , pp. 351-361
    • Schuster, S.1    Pfeiffer, T.2    Moldenhauer, F.3    Koch, I.4    Dandekar, T.5
  • 60
    • 0037197886 scopus 로고    scopus 로고
    • The identification of functional modules from the genomic association of genes
    • Snel, B., Bork, P. & Huynen, M. A. The identification of functional modules from the genomic association of genes. Proc. Natl Acad. Sci. USA 99, 5890-5895 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 5890-5895
    • Snel, B.1    Bork, P.2    Huynen, M.A.3
  • 61
    • 0037062448 scopus 로고    scopus 로고
    • Community structure in social and biological networks
    • Girvan, M. & Newman, M. E. J. Community structure in social and biological networks. Proc. Natl Acad. Sci. USA 99, 7821-7826 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 7821-7826
    • Girvan, M.1    Newman, M.E.J.2
  • 62
    • 0037345719 scopus 로고    scopus 로고
    • Subnetwork hierarchies of biochemical pathways
    • Holme, P., Huss, M. & Jeong, H. Subnetwork hierarchies of biochemical pathways. Bioinformatics 19, 532-538 (2003).
    • (2003) Bioinformatics , vol.19 , pp. 532-538
    • Holme, P.1    Huss, M.2    Jeong, H.3
  • 63
    • 0037417817 scopus 로고    scopus 로고
    • Modular organization of cellular networks
    • Rives, A. W. & Galitski, T. Modular organization of cellular networks. Proc. Natl Acad. Sci. USA 100, 1128-1133 (2003).
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 1128-1133
    • Rives, A.W.1    Galitski, T.2
  • 64
    • 0142059836 scopus 로고    scopus 로고
    • Protein complexes and functional modules in molecular networks
    • Spirin, V. & Mirny, L. A. Protein complexes and functional modules in molecular networks. Proc. Natl Acad. Sci. USA 100, 12123-12128 (2003).
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 12123-12128
    • Spirin, V.1    Mirny, L.A.2
  • 65
    • 0036699526 scopus 로고    scopus 로고
    • Revealing modular organization in the yeast transcriptional network
    • Ihmels, J. et al. Revealing modular organization in the yeast transcriptional network. Nature Genet. 31, 370-377 (2002).
    • (2002) Nature Genet. , vol.31 , pp. 370-377
    • Ihmels, J.1
  • 66
    • 0036789265 scopus 로고    scopus 로고
    • Analyzing yeast protein-protein interaction data obtained from different sources
    • Bader, G. D. & Hogue, C. W. Analyzing yeast protein-protein interaction data obtained from different sources. Nature Biotechnol. 20, 991-997 (2002).
    • (2002) Nature Biotechnol. , vol.20 , pp. 991-997
    • Bader, G.D.1    Hogue, C.W.2
  • 67
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart, J. M., Segal, E., Koller, D. & Kim, S. K. A gene-coexpression network for global discovery of conserved genetic modules. Science 302, 249-255 (2003).
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 68
    • 0345305369 scopus 로고    scopus 로고
    • Functional modules by relating protein interaction networks and gene expression
    • Tornow, S. & Mewes, H. W. Functional modules by relating protein interaction networks and gene expression, Nucleic Acids Res. 31, 6283-6289 (2003).
    • (2003) Nucleic Acids Res. , vol.31 , pp. 6283-6289
    • Tornow, S.1    Mewes, H.W.2
  • 69
    • 0142052944 scopus 로고    scopus 로고
    • A Bayesian networks approach for predicting protein-protein interactions from genomic data
    • Jansen, R. et al. A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science 302, 449-453 (2003).
    • (2003) Science , vol.302 , pp. 449-453
    • Jansen, R.1
  • 70
    • 10744226222 scopus 로고    scopus 로고
    • Computational discovery of gene modules and regulatory networks
    • Bar-Joseph, Z. et al. Computational discovery of gene modules and regulatory networks, Nature Biotechnol. 21, 1337-1342 (2003).
    • (2003) Nature Biotechnol. , vol.21 , pp. 1337-1342
    • Bar-Joseph, Z.1
  • 71
    • 0034721164 scopus 로고    scopus 로고
    • Error and attack tolerance of complex networks
    • Albert, R., Jeong, H. & Barabási, A.-L. Error and attack tolerance of complex networks. Nature 406, 378-382 (2000). This paper addresses the topological robustness and vulnerability of complex networks.
    • (2000) Nature , vol.406 , pp. 378-382
    • Albert, R.1    Jeong, H.2    Barabási, A.-L.3
  • 72
    • 0033529707 scopus 로고    scopus 로고
    • Functional characterization of the S. cerevisae genome by gene deletion and parallel analysis
    • Winzeler, E. A. et al. Functional characterization of the S. cerevisae genome by gene deletion and parallel analysis. Science 285, 901-906 (1999).
    • (1999) Science , vol.285 , pp. 901-906
    • Winzeler, E.A.1
  • 73
    • 0037173615 scopus 로고    scopus 로고
    • Functional profiling of the Saccharomyces cerevisiae genome
    • Giaever, G. et al. Functional profiling of the Saccharomyces cerevisiae genome. Nature 418, 387-391 (2002).
    • (2002) Nature , vol.418 , pp. 387-391
    • Giaever, G.1
  • 74
    • 0141504252 scopus 로고    scopus 로고
    • Experimental determination and system-level analysis of essential genes in Escherichia coli MG1655
    • Gerdes, S. Y. et al. Experimental determination and system-level analysis of essential genes in Escherichia coli MG1655. J. Bacteriol. 185, 5673-5684 (2003).
    • (2003) J. Bacteriol. , vol.185 , pp. 5673-5684
    • Gerdes, S.Y.1
  • 75
    • 0036787648 scopus 로고    scopus 로고
    • Minimization of the Escherichia coli genome using a Tn5-targeted Cre/ loxP excision system
    • Yu, B. J. et al. Minimization of the Escherichia coli genome using a Tn5-targeted Cre/loxP excision system. Nature Biotechnol. 20, 1018-1023 (2002).
    • (2002) Nature Biotechnol. , vol.20 , pp. 1018-1023
    • Yu, B.J.1
  • 76
    • 0036228521 scopus 로고    scopus 로고
    • Engineering a reduced Escherichia coli genome
    • Kolisnychenko, V. et al. Engineering a reduced Escherichia coli genome. Genome Res. 12, 640-647 (2002).
    • (2002) Genome Res. , vol.12 , pp. 640-647
    • Kolisnychenko, V.1
  • 78
    • 0142124263 scopus 로고    scopus 로고
    • Gene loss, protein sequence divergence gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution
    • Krylov, D. M., Wolf, Y. I., Rogozin, I. B. & Koonin, E. V. Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution. Genome Res. 13, 2229-2235 (2003).
    • (2003) Genome Res. , vol.13 , pp. 2229-2235
    • Krylov, D.M.1    Wolf, Y.I.2    Rogozin, I.B.3    Koonin, E.V.4
  • 79
    • 0242659154 scopus 로고    scopus 로고
    • Bioinformatics analysis of experimentally determined protein complexes in the yeast, Saccharomyces cerevisiae
    • Dezso, Z., Oltvai, Z. N. & Barabási, A. L. Bioinformatics analysis of experimentally determined protein complexes in the yeast, Saccharomyces cerevisiae. Genome Res. 13, 2450-2454 (2003).
    • (2003) Genome Res. , vol.13 , pp. 2450-2454
    • Dezso, Z.1    Oltvai, Z.N.2    Barabási, A.L.3
  • 80
    • 0030797355 scopus 로고    scopus 로고
    • Robustness in simple biochemical networks
    • Barkai, N. & Leibler, S. Robustness in simple biochemical networks. Nature 387, 913-917 (1997).
    • (1997) Nature , vol.387 , pp. 913-917
    • Barkai, N.1    Leibler, S.2
  • 81
    • 0033552946 scopus 로고    scopus 로고
    • Robustness in bacterial chemotaxis
    • AJon, U., Surette, M. G., Barkai, N. & Leibler, S. Robustness in bacterial chemotaxis. Nature 397, 168-171 (1999). References 80 and 81 represents the first theoretical/experimental study on the functional robustness of a cellular sub-network, focusing on the bacterial chemotaxis receptor module.
    • (1999) Nature , vol.397 , pp. 168-171
    • Ajon, U.1    Surette, M.G.2    Barkai, N.3    Leibler, S.4
  • 82
    • 0034644270 scopus 로고    scopus 로고
    • The segment polarity network is a robust developmental module
    • von Dassow, G., Meir, E., Munro, E. M. & Odell, G. M. The segment polarity network is a robust developmental module. Nature 406,188-192 (2000).
    • (2000) Nature , vol.406 , pp. 188-192
    • Von Dassow, G.1    Meir, E.2    Munro, E.M.3    Odell, G.M.4
  • 83
    • 0037686112 scopus 로고    scopus 로고
    • The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster
    • Albert, R. & Othmer, H. G. The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster. J. Theor. Biol. 223, 1-18 (2003).
    • (2003) J. Theor. Biol. , vol.223 , pp. 1-18
    • Albert, R.1    Othmer, H.G.2
  • 87
    • 0032516028 scopus 로고    scopus 로고
    • The underlying pathway structure of biochemical reaction networks
    • Schilling, C. H. & Palsson, B. O. The underlying pathway structure of biochemical reaction networks. Proc. Natl Acad. Sci. USA 95, 4193-4198 (1998).
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 4193-4198
    • Schilling, C.H.1    Palsson, B.O.2
  • 88
    • 0037069467 scopus 로고    scopus 로고
    • Analysis of optimality in natural and perturbed metabolic networks
    • Segre, D., Vitkup, D. & Church, G. M. Analysis of optimality in natural and perturbed metabolic networks. Proc. Natl Acad. Sci. USA 99, 15112-15117 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 15112-15117
    • Segre, D.1    Vitkup, D.2    Church, G.M.3
  • 89
    • 0035125986 scopus 로고    scopus 로고
    • In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
    • Edwards, J. S., Ibarra, R. U. & Palsson, B. O. In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nature Biotechnol. 19, 125-130 (2001).
    • (2001) Nature Biotechnol. , vol.19 , pp. 125-130
    • Edwards, J.S.1    Ibarra, R.U.2    Palsson, B.O.3
  • 90
    • 0037079023 scopus 로고    scopus 로고
    • Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
    • Ibarra, R. U., Edwards, J. S. & Palsson, B. O. Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth. Nature 420, 186-189 (2002). After their theoretical work on flux-balance analysis, the authors of references 89 and 90 show its relevance to predicting experimentally observable metabolic flux values.
    • (2002) Nature , vol.420 , pp. 186-189
    • Ibarra, R.U.1    Edwards, J.S.2    Palsson, B.O.3
  • 92
    • 0036683181 scopus 로고    scopus 로고
    • Linking the genes: Inferring quantitative gene networks from microarray data
    • de la Fuente, A., Brazhnik, P. & Mendes, P. Linking the genes: inferring quantitative gene networks from microarray data. Trends Genet. 18, 395-398 (2002).
    • (2002) Trends Genet. , vol.18 , pp. 395-398
    • De La Fuente, A.1    Brazhnik, P.2    Mendes, P.3
  • 93
    • 0036021408 scopus 로고    scopus 로고
    • General statistics of stochastic processes of gene expression in eucaryotic cells
    • Kuznetsov, V. A., Knott, G. D. & Bonner, R. F. General statistics of stochastic processes of gene expression in eucaryotic cells. Genetics 161, 1321-1332 (2002).
    • (2002) Genetics , vol.161 , pp. 1321-1332
    • Kuznetsov, V.A.1    Knott, G.D.2    Bonner, R.F.3
  • 94
    • 0037442317 scopus 로고    scopus 로고
    • The topology of the transcription regulatory network in the yeast, Saccharomyces cerevisiae
    • Farkas, I. J., Jeong, H., Vicsek, T., Barabási, A.-L. & Oltvai, Z. N. The topology of the transcription regulatory network in the yeast, Saccharomyces cerevisiae. Physica A 318, 601-612 (2003).
    • (2003) Physica A , vol.318 , pp. 601-612
    • Farkas, I.J.1    Jeong, H.2    Vicsek, T.3    Barabási, A.-L.4    Oltvai, Z.N.5
  • 95
    • 0035445792 scopus 로고    scopus 로고
    • A relationship between gene expression and protein interactions on the proteome scale: Analysis of the bacteriophage T 7 and the yeast Saccharomyces cerevisiae
    • Grigoriev, A. A relationship between gene expression and protein interactions on the proteome scale: analysis of the bacteriophage T7 and the yeast Saccharomyces cerevisiae. Nucleic Acids Res. 29, 3513-3519 (2001).
    • (2001) Nucleic Acids Res. , vol.29 , pp. 3513-3519
    • Grigoriev, A.1
  • 96
    • 0035733690 scopus 로고    scopus 로고
    • Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae
    • Ge, H., Liu, Z., Church, G. M. & Vidal, M. Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae. Nature Genet. 29, 482-486 (2001).
    • (2001) Nature Genet. , vol.29 , pp. 482-486
    • Ge, H.1    Liu, Z.2    Church, G.M.3    Vidal, M.4
  • 97
    • 0036141992 scopus 로고    scopus 로고
    • Relating whole-genome expression data with protein-protein interactions
    • Jansen, R., Greenbaum, D. & Gerstein, M. Relating whole-genome expression data with protein-protein interactions. Genome Res. 12, 37-46 (2002).
    • (2002) Genome Res. , vol.12 , pp. 37-46
    • Jansen, R.1    Greenbaum, D.2    Gerstein, M.3
  • 98
    • 19044383203 scopus 로고    scopus 로고
    • Fluctuation-driven dynamics of the internet topology
    • Goh, K. I., Kahng, B. & Kim, D. Fluctuation-driven dynamics of the internet topology. Phys. Rev. Lett. 88, 108701 (2002).
    • (2002) Phys. Rev. Lett. , vol.88 , pp. 108701
    • Goh, K.I.1    Kahng, B.2    Kim, D.3
  • 101
    • 0037119587 scopus 로고    scopus 로고
    • Stochastic gene expression in a single cell
    • Elowitz, M. B., Levine, A. J., Siggia, E. D. & Swain, P. S. Stochastic gene expression in a single cell. Science 297, 1183-1186 (2002).
    • (2002) Science , vol.297 , pp. 1183-1186
    • Elowitz, M.B.1    Levine, A.J.2    Siggia, E.D.3    Swain, P.S.4
  • 102
    • 0037722938 scopus 로고    scopus 로고
    • Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling
    • Zeitlinger, J. et al. Program-specific distribution of a transcription factor dependent on partner transcription factor and MAPK signaling. Cell 113, 395-404 (2003).
    • (2003) Cell , vol.113 , pp. 395-404
    • Zeitlinger, J.1
  • 103
    • 0035805255 scopus 로고    scopus 로고
    • Integrated genomic and proteomic analyses of a systematically perturbed metabolic network
    • Ideker, T. et al. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292, 929-934 (2001).
    • (2001) Science , vol.292 , pp. 929-934
    • Ideker, T.1
  • 104
    • 0041357164 scopus 로고    scopus 로고
    • BAD and glucokinase reside in a mitochondrial complex that integrates glycolysis and apoptosis
    • Danial, N. N. et al. BAD and glucokinase reside in a mitochondrial complex that integrates glycolysis and apoptosis. Nature 424, 952-956 (2003).
    • (2003) Nature , vol.424 , pp. 952-956
    • Danial, N.N.1
  • 105
    • 0034598746 scopus 로고    scopus 로고
    • Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
    • Alizadeh, A. A. et al. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 403, 503-511 (2000).
    • (2000) Nature , vol.403 , pp. 503-511
    • Alizadeh, A.A.1
  • 106
    • 0036134642 scopus 로고    scopus 로고
    • Metabolic flux responses to pyruvate kinase knockout in Escherichia coli
    • Emmeding, M. et al. Metabolic flux responses to pyruvate kinase knockout in Escherichia coli. J Bacteriol 184, 152-164 (2002).
    • (2002) J Bacteriol , vol.184 , pp. 152-164
    • Emmeding, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.