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Volumn 9, Issue , 2008, Pages

Deducing topology of protein-protein interaction networks from experimentally measured sub-networks

Author keywords

[No Author keywords available]

Indexed keywords

CELLULAR NETWORK; PROTEIN INTERACTION; PROTEIN-PROTEIN INTERACTION NETWORKS; PROTEIN-PROTEIN INTERACTIONS; RANDOM SAMPLE; TOPOLOGICAL CHARACTERISTICS; TOPOLOGICAL INFORMATION; YEAST TWO HYBRID;

EID: 47749108696     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-9-301     Document Type: Article
Times cited : (3)

References (44)
  • 1
    • 0034721164 scopus 로고    scopus 로고
    • Error and attack tolerance of complex networks
    • 10.1038/35019019 10935628
    • Albert R Jeong H Barabasi AL Error and attack tolerance of complex networks Nature 2000, 406(6794):378-382 10.1038/35019019 10935628
    • (2000) Nature , vol.406 , Issue.6794 , pp. 378-382
    • Albert, R.1    Jeong, H.2    Barabasi, A.L.3
  • 3
    • 0742305866 scopus 로고    scopus 로고
    • Network biology: Understanding the cell's functional organization
    • 10.1038/nrg1272 14735121
    • Barabasi AL Oltvai ZN Network biology: Understanding the cell's functional organization Nat Rev Genet 2004, 5(2):101-113 10.1038/nrg1272 14735121
    • (2004) Nat Rev Genet , vol.5 , Issue.2 , pp. 101-113
    • Barabasi, A.L.1    Oltvai, Z.N.2
  • 4
    • 0035799707 scopus 로고    scopus 로고
    • Lethality and centrality in protein networks
    • 10.1038/35075138 11333967
    • Jeong H Mason SP Barabasi AL Oltvai ZN Lethality and centrality in protein networks Nature 2001, 411(6833):41-42 10.1038/35075138 11333967
    • (2001) Nature , vol.411 , Issue.6833 , pp. 41-42
    • Jeong, H.1    Mason, S.P.2    Barabasi, A.L.3    Oltvai, Z.N.4
  • 5
    • 31044448435 scopus 로고    scopus 로고
    • A simple physical model for scaling in protein-protein interaction networks
    • 1326177 16384916 10.1073/pnas.0509715102
    • Deeds EJ Ashenberg O Shakhnovich EI A simple physical model for scaling in protein-protein interaction networks Proc Natl Acad Sci U S A 2006, 103(2):311-316 1326177 16384916 10.1073/pnas.0509715102
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 311-316
    • Deeds, E.J.1    Ashenberg, O.2    Shakhnovich, E.I.3
  • 6
    • 33746834184 scopus 로고    scopus 로고
    • Free-energy distribution of binary protein-protein binding suggests cross-species interactome differences
    • 1544203 16861299 10.1073/pnas.0604316103
    • Shi YY Miller GA Qian H Bomsztyk K Free-energy distribution of binary protein-protein binding suggests cross-species interactome differences Proc Natl Acad Sci U S A 2006, 103(31):11527-11532 1544203 16861299 10.1073/pnas.0604316103
    • (2006) Proc Natl Acad Sci U S A , vol.103 , Issue.31 , pp. 11527-11532
    • Shi, Y.Y.1    Miller, G.A.2    Qian, H.3    Bomsztyk, K.4
  • 7
    • 15444372528 scopus 로고    scopus 로고
    • Subnets of scale-free networks are not scale-free: Sampling properties of networks
    • 555505 15767579 10.1073/pnas.0501179102
    • Stumpf MP Wiuf C May RM Subnets of scale-free networks are not scale-free: Sampling properties of networks Proc Natl Acad Sci U S A 2005, 102(12):4221-4224 555505 15767579 10.1073/pnas.0501179102
    • (2005) Proc Natl Acad Sci U S A , vol.102 , Issue.12 , pp. 4221-4224
    • Stumpf, M.P.1    Wiuf, C.2    May, R.M.3
  • 8
    • 28844465436 scopus 로고    scopus 로고
    • Sampling properties of random graphs: The degree distribution
    • Stumpf MP Wiuf C Sampling properties of random graphs: The degree distribution Phys Rev E Stat Nonlin Soft Matter Phys 2005, 72(3 Pt 2):36118
    • (2005) Phys Rev E Stat Nonlin Soft Matter Phys , vol.72 , Issue.3 PART 2 , pp. 36118
    • Stumpf, M.P.1    Wiuf, C.2
  • 9
    • 24944442468 scopus 로고    scopus 로고
    • Effect of sampling on topology predictions of protein-protein interaction networks
    • 10.1038/nbt1116 16003372
    • Han JD Dupuy D Bertin N Cusick ME Vidal M Effect of sampling on topology predictions of protein-protein interaction networks Nat Biotechnol 2005, 23(7):839-844 10.1038/nbt1116 16003372
    • (2005) Nat Biotechnol , vol.23 , Issue.7 , pp. 839-844
    • Han, J.D.1    Dupuy, D.2    Bertin, N.3    Cusick, M.E.4    Vidal, M.5
  • 10
    • 0034609791 scopus 로고    scopus 로고
    • The large-scale organization of metabolic networks
    • 10.1038/35036627 11034217
    • Jeong H Tombor B Albert R Oltvai ZN Barabasi AL The large-scale organization of metabolic networks Nature 2000, 407(6804):651-654 10.1038/35036627 11034217
    • (2000) Nature , vol.407 , Issue.6804 , pp. 651-654
    • Jeong, H.1    Tombor, B.2    Albert, R.3    Oltvai, Z.N.4    Barabasi, A.L.5
  • 13
    • 13444263410 scopus 로고    scopus 로고
    • Self-similarity of complex networks
    • 10.1038/nature03248 15674285
    • Song C Havlin S Makse HA Self-similarity of complex networks Nature 2005, 433(7024):392-395 10.1038/nature03248 15674285
    • (2005) Nature , vol.433 , Issue.7024 , pp. 392-395
    • Song, C.1    Havlin, S.2    Makse, H.A.3
  • 15
    • 34247549810 scopus 로고    scopus 로고
    • Statistical properties of sampled networks by random walks
    • 17500968
    • Yoon S Lee S Yook SH Kim Y Statistical properties of sampled networks by random walks Phys Rev E Stat Nonlin Soft Matter Phys 2007, 75(4 Pt 2):046114 17500968
    • (2007) Phys Rev E Stat Nonlin Soft Matter Phys , vol.75 , Issue.4 PART 2 , pp. 046114
    • Yoon, S.1    Lee, S.2    Yook, S.H.3    Kim, Y.4
  • 16
    • 11144248635 scopus 로고    scopus 로고
    • The topological relationship between the large-scale attributes and local interaction patterns of complex networks
    • 539752 15598746 10.1073/pnas.0406024101
    • Vazquez A Dobrin R Sergi D Eckmann JP Oltvai ZN Barabasi AL The topological relationship between the large-scale attributes and local interaction patterns of complex networks Proc Natl Acad Sci U S A 2004, 101(52):17940-17945 539752 15598746 10.1073/pnas.0406024101
    • (2004) Proc Natl Acad Sci U S A , vol.101 , Issue.52 , pp. 17940-17945
    • Vazquez, A.1    Dobrin, R.2    Sergi, D.3    Eckmann, J.P.4    Oltvai, Z.N.5    Barabasi, A.L.6
  • 17
    • 20344379457 scopus 로고    scopus 로고
    • Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli
    • 1142363 15908506 10.1073/pnas.0500365102
    • Balazsi G Barabasi AL Oltvai ZN Topological units of environmental signal processing in the transcriptional regulatory network of Escherichia coli Proc Natl Acad Sci U S A 2005, 102(22):7841-7846 1142363 15908506 10.1073/pnas.0500365102
    • (2005) Proc Natl Acad Sci U S A , vol.102 , Issue.22 , pp. 7841-7846
    • Balazsi, G.1    Barabasi, A.L.2    Oltvai, Z.N.3
  • 19
    • 24944565272 scopus 로고    scopus 로고
    • Some protein interaction data do not exhibit power law statistics
    • 10.1016/j.febslet.2005.08.024 16143331
    • Tanaka R Yi TM Doyle J Some protein interaction data do not exhibit power law statistics FEBS Lett 2005, 579(23):5140-5144 10.1016/ j.febslet.2005.08.024 16143331
    • (2005) FEBS Lett , vol.579 , Issue.23 , pp. 5140-5144
    • Tanaka, R.1    Yi, T.M.2    Doyle, J.3
  • 21
    • 12344273375 scopus 로고    scopus 로고
    • Modeling interactome: Scale-free or geometric?
    • 10.1093/bioinformatics/bth436 15284103
    • Przulj N Corneil DG Jurisica I Modeling interactome: Scale-free or geometric? Bioinformatics 2004, 20(18):3508-3515 10.1093/bioinformatics/ bth436 15284103
    • (2004) Bioinformatics , vol.20 , Issue.18 , pp. 3508-3515
    • Przulj, N.1    Corneil, D.G.2    Jurisica, I.3
  • 22
    • 33744473304 scopus 로고    scopus 로고
    • How scale-free are biological networks
    • 10.1089/cmb.2006.13.810 16706727
    • Khanin R Wit E How scale-free are biological networks J Comput Biol 2006, 13(3):810-818 10.1089/cmb.2006.13.810 16706727
    • (2006) J Comput Biol , vol.13 , Issue.3 , pp. 810-818
    • Khanin, R.1    Wit, E.2
  • 23
    • 0035836765 scopus 로고    scopus 로고
    • A comprehensive two-hybrid analysis to explore the yeast protein interactome
    • 31875 11283351 10.1073/pnas.061034498
    • Ito T Chiba T Ozawa R Yoshida M Hattori M Sakaki Y A comprehensive two-hybrid analysis to explore the yeast protein interactome Proc Natl Acad Sci U S A 2001, 98(8):4569-4574 31875 11283351 10.1073/ pnas.061034498
    • (2001) Proc Natl Acad Sci U S A , vol.98 , Issue.8 , pp. 4569-4574
    • Ito, T.1    Chiba, T.2    Ozawa, R.3    Yoshida, M.4    Hattori, M.5    Sakaki, Y.6
  • 24
    • 0037163883 scopus 로고    scopus 로고
    • Potential artefacts in protein-interaction networks
    • 10.1016/S0014-5793(02)03427-0 12387902
    • Aloy P Russell RB Potential artefacts in protein-interaction networks FEBS Lett 2002, 530(1-3):253-254 10.1016/S0014-5793(02)03427-0 12387902
    • (2002) FEBS Lett , vol.530 , Issue.1-3 , pp. 253-254
    • Aloy, P.1    Russell, R.B.2
  • 25
    • 0037012880 scopus 로고    scopus 로고
    • Specificity and stability in topology of protein networks
    • 10.1126/science.1065103 11988575
    • Maslov S Sneppen K Specificity and stability in topology of protein networks Science 2002, 296(5569):910-913 10.1126/science.1065103 11988575
    • (2002) Science , vol.296 , Issue.5569 , pp. 910-913
    • Maslov, S.1    Sneppen, K.2
  • 26
    • 0037163907 scopus 로고    scopus 로고
    • Protein interaction networks beyond artifacts
    • 10.1016/S0014-5793(02)03428-2 12387903
    • Maslov S Sneppen K Protein interaction networks beyond artifacts FEBS Lett 2002, 530(1-3):255-256 10.1016/S0014-5793(02)03428-2 12387903
    • (2002) FEBS Lett , vol.530 , Issue.1-3 , pp. 255-256
    • Maslov, S.1    Sneppen, K.2
  • 27
    • 0037174670 scopus 로고    scopus 로고
    • Network motifs: Simple building blocks of complex networks
    • 10.1126/science.298.5594.824 12399590
    • Milo R Shen-Orr S Itzkovitz S Kashtan N Chklovskii D Alon U Network motifs: Simple building blocks of complex networks 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
  • 30
    • 0036580169 scopus 로고    scopus 로고
    • Protein interactions: Two methods for assessment of the reliability of high throughput observations
    • 10.1074/mcp.M100037-MCP200 12118076
    • Deane CM Salwinski L Xenarios I Eisenberg D Protein interactions: Two methods for assessment of the reliability of high throughput observations Mol Cell Proteomics 2002, 1(5):349-356 10.1074/ mcp.M100037-MCP200 12118076
    • (2002) Mol Cell Proteomics , vol.1 , Issue.5 , pp. 349-356
    • Deane, C.M.1    Salwinski, L.2    Xenarios, I.3    Eisenberg, D.4
  • 31
    • 0037161731 scopus 로고    scopus 로고
    • Comparative assessment of large-scale data sets of protein-protein interactions
    • 10.1038/nature750 12000970
    • von Mering C Krause R Snel B Cornell M Oliver SG Fields S Bork P Comparative assessment of large-scale data sets of protein-protein interactions Nature 2002, 417(6887):399-403 10.1038/nature750 12000970
    • (2002) Nature , vol.417 , Issue.6887 , pp. 399-403
    • von Mering, C.1    Krause, R.2    Snel, B.3    Cornell, M.4    Oliver, S.G.5    Fields, S.6    Bork, P.7
  • 32
    • 0347473809 scopus 로고    scopus 로고
    • Gaining confidence in high-throughput protein interaction networks
    • 10.1038/nbt924 14704708
    • Bader JS Chaudhuri A Rothberg JM Chant J Gaining confidence in high-throughput protein interaction networks Nat Biotechnol 2004, 22(1):78-85 10.1038/nbt924 14704708
    • (2004) Nat Biotechnol , vol.22 , Issue.1 , pp. 78-85
    • Bader, J.S.1    Chaudhuri, A.2    Rothberg, J.M.3    Chant, J.4
  • 34
    • 0038483826 scopus 로고    scopus 로고
    • Emergence of scaling in random networks
    • 10.1126/science.286.5439.509 10521342
    • Barabasi AL Albert R Emergence of scaling in random networks Science 1999, 286(5439):509-512 10.1126/science.286.5439.509 10521342
    • (1999) Science , vol.286 , Issue.5439 , pp. 509-512
    • Barabasi, A.L.1    Albert, R.2
  • 35
    • 0038048325 scopus 로고    scopus 로고
    • Inferring genetic networks and identifying compound mode of action via expression profiling
    • 10.1126/science.1081900 12843395
    • Gardner TS di Bernardo D Lorenz D Collins JJ Inferring genetic networks and identifying compound mode of action via expression profiling Science 2003, 301(5629):102-105 10.1126/science.1081900 12843395
    • (2003) Science , vol.301 , Issue.5629 , pp. 102-105
    • Gardner, T.S.1    di Bernardo, D.2    Lorenz, D.3    Collins, J.J.4
  • 37
    • 21244491249 scopus 로고    scopus 로고
    • Hysteresis and cell cycle transitions: How crucial is it?
    • 1305219 15626707 10.1529/biophysj.104.053066
    • Han Z Yang L Maclellan WR Weiss JN Qu Z Hysteresis and cell cycle transitions: How crucial is it? Biophys J 2005, 88(3):1626-1634 1305219 15626707 10.1529/biophysj.104.053066
    • (2005) Biophys J , vol.88 , Issue.3 , pp. 1626-1634
    • Han, Z.1    Yang, L.2    Maclellan, W.R.3    Weiss, J.N.4    Qu, Z.5
  • 39
    • 32644478239 scopus 로고    scopus 로고
    • Dynamical advantages of scale-free networks
    • 16486533 10.1103/PhysRevLett.96.018702
    • Willeboordse FH Dynamical advantages of scale-free networks Phys Rev Lett 2006, 96(1):018702 16486533 10.1103/PhysRevLett.96.018702
    • (2006) Phys Rev Lett , vol.96 , Issue.1 , pp. 018702
    • Willeboordse, F.H.1
  • 42
    • 14744270216 scopus 로고    scopus 로고
    • A first-draft human protein-interaction map
    • 522870 15345047 10.1186/gb-2004-5-9-r63
    • Lehner B Fraser AG A first-draft human protein-interaction map Genome Biol 2004, 5(9):R63 522870 15345047 10.1186/gb-2004-5-9-r63
    • (2004) Genome Biol , vol.5 , Issue.9
    • Lehner, B.1    Fraser, A.G.2
  • 43
    • 0000664045 scopus 로고
    • The asymptotic number of labeled graphs with given degree sequences
    • 10.1016/0097-3165(78)90059-6
    • Bender EA Canfield ER The asymptotic number of labeled graphs with given degree sequences Journal of Combinatorial Theory A 1978, 24:296-307 10.1016/0097-3165(78)90059-6
    • (1978) Journal of Combinatorial Theory A , vol.24 , pp. 296-307
    • Bender, E.A.1    Canfield, E.R.2
  • 44
    • 84886755290 scopus 로고    scopus 로고
    • Alon U http://www.weizmann.ac.il/mcb/UriAlon/
    • Alon, U.1


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