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Volumn 34, Issue 11, 2008, Pages 627-639

A graph-theoretic analysis of the human protein-interaction network using multicore parallel algorithms

Author keywords

Betweenness centrality; Complex networks; Human protein interactome

Indexed keywords

ACTIVE NETWORKS; COMPUTATIONAL GEOMETRY; FLOW INTERACTIONS; GRAPH THEORY; NETWORK PROTOCOLS; SENSOR NETWORKS; TOPOLOGY; YEAST;

EID: 54949115045     PISSN: 01678191     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.parco.2008.04.002     Document Type: Article
Times cited : (27)

References (43)
  • 1
    • 13444272070 scopus 로고    scopus 로고
    • The biomolecular interaction network database and related tools: 2005 update
    • Alfarano C., et al. The biomolecular interaction network database and related tools: 2005 update. Nucleic Acids Res. 33 (2005) D418-D424
    • (2005) Nucleic Acids Res. , vol.33
    • Alfarano, C.1
  • 2
    • 38149071742 scopus 로고    scopus 로고
    • Approximating betweenness centrality
    • Proceedings of the Fifth Workshop on Algorithms and Models for the Web-Graph (WAW2007), Springer-Verlag, San Diego, CA Decemeber
    • Bader D.A., Kintali S., Madduri K., and Mihail M. Approximating betweenness centrality. Proceedings of the Fifth Workshop on Algorithms and Models for the Web-Graph (WAW2007). Lecture Notes in Computer Science vol. 4863 (2007), Springer-Verlag, San Diego, CA 124-137 Decemeber
    • (2007) Lecture Notes in Computer Science , vol.4863 , pp. 124-137
    • Bader, D.A.1    Kintali, S.2    Madduri, K.3    Mihail, M.4
  • 5
    • 54949154590 scopus 로고    scopus 로고
    • D.A. Bader, K. Madduri, A graph-theoretic analysis of the human protein interaction network using multicore parallel algorithms, in: Proceedings of the Sixth Workshop on High Performance Computational Biology (HiCOMB 2007), Long Beach, CA, March 2007.
    • D.A. Bader, K. Madduri, A graph-theoretic analysis of the human protein interaction network using multicore parallel algorithms, in: Proceedings of the Sixth Workshop on High Performance Computational Biology (HiCOMB 2007), Long Beach, CA, March 2007.
  • 6
    • 51049088410 scopus 로고    scopus 로고
    • D.A. Bader, K. Madduri, SNAP, small-world network analysis and partitioning: an open-source parallel graph framework for the exploration of large-scale networks, in: Proceedings of the International Parallel and Distributed Processing Symposium (IPDPS 2008), Miami, FL, April 2008.
    • D.A. Bader, K. Madduri, SNAP, small-world network analysis and partitioning: an open-source parallel graph framework for the exploration of large-scale networks, in: Proceedings of the International Parallel and Distributed Processing Symposium (IPDPS 2008), Miami, FL, April 2008.
  • 8
    • 0002226683 scopus 로고    scopus 로고
    • Pajek - program for large network analysis
    • Batagelj V., and Mrvar A. Pajek - program for large network analysis. Connections 21 2 (1998) 47-57
    • (1998) Connections , vol.21 , Issue.2 , pp. 47-57
    • Batagelj, V.1    Mrvar, A.2
  • 9
    • 12444301754 scopus 로고    scopus 로고
    • Structure and evolution of protein interaction networks: a statistical model for link dynamics and gene duplications
    • Berg J., Lassig M., and Wagner A. Structure and evolution of protein interaction networks: a statistical model for link dynamics and gene duplications. BMC Evol. Biol. 4 1 (2004) 51
    • (2004) BMC Evol. Biol. , vol.4 , Issue.1 , pp. 51
    • Berg, J.1    Lassig, M.2    Wagner, A.3
  • 11
    • 0035648637 scopus 로고    scopus 로고
    • A faster algorithm for betweenness centrality
    • Brandes U. A faster algorithm for betweenness centrality. J. Math. Sociol. 25 2 (2001) 163-177
    • (2001) J. Math. Sociol. , vol.25 , Issue.2 , pp. 163-177
    • Brandes, U.1
  • 12
    • 4243169182 scopus 로고    scopus 로고
    • Graph-based technologies for intelligence analysis
    • Coffman T., Greenblatt S., and Marcus S. Graph-based technologies for intelligence analysis. Commun. ACM 47 3 (2004) 45-47
    • (2004) Commun. ACM , vol.47 , Issue.3 , pp. 45-47
    • Coffman, T.1    Greenblatt, S.2    Marcus, S.3
  • 13
    • 34548784575 scopus 로고    scopus 로고
    • J.R. Crobak, J.W. Berry, K. Madduri, D.A. Bader, Advanced shortest path algorithms on a massively-multithreaded architecture, in: Proceedings of Workshop on Multithreaded Architectures and Applications, Long Beach, CA, March 2007.
    • J.R. Crobak, J.W. Berry, K. Madduri, D.A. Bader, Advanced shortest path algorithms on a massively-multithreaded architecture, in: Proceedings of Workshop on Multithreaded Architectures and Applications, Long Beach, CA, March 2007.
  • 14
    • 84865730611 scopus 로고
    • A set of measures of centrality based on betweenness
    • Freeman L.C. A set of measures of centrality based on betweenness. Sociometry 40 1 (1977) 35-41
    • (1977) Sociometry , vol.40 , Issue.1 , pp. 35-41
    • Freeman, L.C.1
  • 15
    • 33644617753 scopus 로고    scopus 로고
    • Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets
    • Gandhi T.K., et al. Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets. Nat. Genet. 38 (2006) 285-293
    • (2006) Nat. Genet. , vol.38 , pp. 285-293
    • Gandhi, T.K.1
  • 16
    • 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 (2003) 1727-1736
    • (2003) Science , vol.302 , pp. 1727-1736
    • Giot, L.1
  • 17
    • 0037062448 scopus 로고    scopus 로고
    • Community structure in social and biological networks
    • Girvan M., and Newman M.E.J. Community structure in social and biological networks. Proc. Natl. Acad. Sci. USA 99 12 (2002) 7821-7826
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , Issue.12 , pp. 7821-7826
    • Girvan, M.1    Newman, M.E.J.2
  • 18
    • 20344377406 scopus 로고    scopus 로고
    • The worldwide air transportation network: anomalous centrality, community structure, and cities' global roles
    • Guimerà R., Mossa S., Turtschi A., and Amaral L.A.N. The worldwide air transportation network: anomalous centrality, community structure, and cities' global roles. Proc. Natl. Acad. Sci. USA 102 22 (2005) 7794-7799
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , Issue.22 , pp. 7794-7799
    • Guimerà, R.1    Mossa, S.2    Turtschi, A.3    Amaral, L.A.N.4
  • 21
    • 0012624911 scopus 로고    scopus 로고
    • Prediction of protein essentiality based on genomic data
    • Jeong H., Oltvai Z., and Barabási A.-L. Prediction of protein essentiality based on genomic data. ComPlexUs 1 (2003) 19-28
    • (2003) ComPlexUs , vol.1 , pp. 19-28
    • Jeong, H.1    Oltvai, Z.2    Barabási, A.-L.3
  • 22
    • 27744469130 scopus 로고    scopus 로고
    • High-betweenness proteins in the yeast protein interaction network
    • Joy M.P., Brock A., Ingber D.E., and Huang S. High-betweenness proteins in the yeast protein interaction network. J. Biomed. Biotechnol. 2 (2005) 96-103
    • (2005) J. Biomed. Biotechnol. , vol.2 , pp. 96-103
    • Joy, M.P.1    Brock, A.2    Ingber, D.E.3    Huang, S.4
  • 23
    • 14744270216 scopus 로고    scopus 로고
    • A first-draft human protein-interaction map
    • Lehner B., and Fraser A.G. A first-draft human protein-interaction map. Genome Biol. 5 9 (2004) R63
    • (2004) Genome Biol. , vol.5 , Issue.9
    • Lehner, B.1    Fraser, A.G.2
  • 24
    • 9144264169 scopus 로고    scopus 로고
    • A map of the interactome network of the metazoan C. elegans
    • Li S., et al. A map of the interactome network of the metazoan C. elegans. Science 303 5657 (2004) 540-543
    • (2004) Science , vol.303 , Issue.5657 , pp. 540-543
    • Li, S.1
  • 26
    • 34547953707 scopus 로고    scopus 로고
    • K. Madduri, D.A. Bader, J.W. Berry, J.R. Crobak, An experimental study of a parallel shortest path algorithm for solving large-scale graph instances, in: Proceedings of the Ninth Workshop on Algorithm Engineering and Experiments (ALENEX07), New Orleans, LA, January 2007.
    • K. Madduri, D.A. Bader, J.W. Berry, J.R. Crobak, An experimental study of a parallel shortest path algorithm for solving large-scale graph instances, in: Proceedings of the Ninth Workshop on Algorithm Engineering and Experiments (ALENEX07), New Orleans, LA, January 2007.
  • 27
    • 0038718854 scopus 로고    scopus 로고
    • The structure and function of complex networks
    • Newman M.E.J. The structure and function of complex networks. SIAM Rev. 45 2 (2003) 167-256
    • (2003) SIAM Rev. , vol.45 , Issue.2 , pp. 167-256
    • Newman, M.E.J.1
  • 28
    • 10744224197 scopus 로고    scopus 로고
    • Development of human protein reference database as an initial platform for approaching systems biology in humans
    • Peri S., et al. Development of human protein reference database as an initial platform for approaching systems biology in humans. Genome Res. 13 (2003) 2363-2371
    • (2003) Genome Res. , vol.13 , pp. 2363-2371
    • Peri, S.1
  • 29
    • 54949151157 scopus 로고    scopus 로고
    • J.W. Pinney, G.A. McConkey, D.R. Westhead, Decomposition of biological networks using betweenness centrality, in: Proceedings of the Ninth Annual International Conference on Research in Computational Molecular Biology (RECOMB 2005), Cambridge, MA, May 2005, Poster session.
    • J.W. Pinney, G.A. McConkey, D.R. Westhead, Decomposition of biological networks using betweenness centrality, in: Proceedings of the Ninth Annual International Conference on Research in Computational Molecular Biology (RECOMB 2005), Cambridge, MA, May 2005, Poster session.
  • 30
    • 25144516911 scopus 로고    scopus 로고
    • Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome
    • Ramani A.K., Bunescu R.C., Mooney R.J., and Marcotte E.M. Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome. Genome Biol. 6 5 (2005) R40
    • (2005) Genome Biol. , vol.6 , Issue.5
    • Ramani, A.K.1    Bunescu, R.C.2    Mooney, R.J.3    Marcotte, E.M.4
  • 32
    • 54949146151 scopus 로고    scopus 로고
    • W. Richards, International network for social network analysis, 2005. .
    • W. Richards, International network for social network analysis, 2005. .
  • 33
    • 54949094426 scopus 로고    scopus 로고
    • W. Richards, Links to software for network analysis, 2005. .
    • W. Richards, Links to software for network analysis, 2005. .
  • 34
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual J.-F., et al. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437 (2005) 1173-1178
    • (2005) Nature , vol.437 , pp. 1173-1178
    • Rual, J.-F.1
  • 39
    • 10744230485 scopus 로고    scopus 로고
    • Global mapping of the yeast genetic interaction network
    • Tong A.H.Y., et al. Global mapping of the yeast genetic interaction network. Science 303 5659 (2004) 808-813
    • (2004) Science , vol.303 , Issue.5659 , pp. 808-813
    • Tong, A.H.Y.1
  • 41
    • 0038699587 scopus 로고    scopus 로고
    • Global protein function prediction in protein-protein interaction networks
    • Vazquez A., Flammini A., Maritan A., and Vespignani A. Global protein function prediction in protein-protein interaction networks. Nat. Biotechnol. 21 6 (2003) 697-700
    • (2003) Nat. Biotechnol. , vol.21 , Issue.6 , pp. 697-700
    • Vazquez, A.1    Flammini, A.2    Maritan, A.3    Vespignani, A.4
  • 43
    • 13844310836 scopus 로고    scopus 로고
    • Peeling the yeast protein network
    • Wuchty S., and Almaas E. Peeling the yeast protein network. Proteomics 5 2 (2005) 444-449
    • (2005) Proteomics , vol.5 , Issue.2 , pp. 444-449
    • Wuchty, S.1    Almaas, E.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.