-
1
-
-
13444272070
-
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
-
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
-
3
-
-
34547399946
-
Designing multithreaded algorithms for breadth-first search and st-connectivity on the Cray MTA-2
-
IEEE Computer Society, Columbus, OH
-
Bader D.A., and Madduri K. Designing multithreaded algorithms for breadth-first search and st-connectivity on the Cray MTA-2. Proceedings of the 35th International Conference on Parallel Processing (ICPP), August (2006), IEEE Computer Society, Columbus, OH
-
(2006)
Proceedings of the 35th International Conference on Parallel Processing (ICPP), August
-
-
Bader, D.A.1
Madduri, K.2
-
5
-
-
54949154590
-
-
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
-
-
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.
-
-
-
-
7
-
-
33750238153
-
Stratus not altocumulus: a new view of the yeast protein interaction network
-
Batada N.N., Reguly T., Breitkreutz A., Boucher L., Breitkreutz B.-J., Hurst L.D., and Tyers M. Stratus not altocumulus: a new view of the yeast protein interaction network. PLoS Biol. 4 10 (2006) e317
-
(2006)
PLoS Biol.
, vol.4
, Issue.10
-
-
Batada, N.N.1
Reguly, T.2
Breitkreutz, A.3
Boucher, L.4
Breitkreutz, B.-J.5
Hurst, L.D.6
Tyers, M.7
-
8
-
-
0002226683
-
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
-
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
-
10
-
-
2942544498
-
Protein interaction networks from yeast to human
-
Bork P., Jensen L.J., von Mering C., Ramani A.K., Lee I., and Marcotte E.M. Protein interaction networks from yeast to human. Curr. Opin. Struct. Biol. 14 (2004) 292-299
-
(2004)
Curr. Opin. Struct. Biol.
, vol.14
, pp. 292-299
-
-
Bork, P.1
Jensen, L.J.2
von Mering, C.3
Ramani, A.K.4
Lee, I.5
Marcotte, E.M.6
-
11
-
-
0035648637
-
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
-
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
-
-
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
-
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
-
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
-
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
-
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
-
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
-
19
-
-
9144248312
-
IntAct: an open source molecular interaction database
-
Hermjakob H., Montecchi-Palazzi L., Lewington C., Mudali S., Kerrien S., Orchard S., Vingron M., Roechert B., Roepstorff P., Valencia A., Margalit H., Armstrong J., Bairoch A., Cesareni G., Sherman D., and Apweiler R. IntAct: an open source molecular interaction database. Nucleic Acids Res. 32 (2004) D452-D455
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Hermjakob, H.1
Montecchi-Palazzi, L.2
Lewington, C.3
Mudali, S.4
Kerrien, S.5
Orchard, S.6
Vingron, M.7
Roechert, B.8
Roepstorff, P.9
Valencia, A.10
Margalit, H.11
Armstrong, J.12
Bairoch, A.13
Cesareni, G.14
Sherman, D.15
Apweiler, R.16
-
21
-
-
0012624911
-
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
-
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
-
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
-
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
-
25
-
-
0035927795
-
The web of human sexual contacts
-
Liljeros F., Edling C.R., Amaral L.A.N., Stanley H.E., and Åberg Y. The web of human sexual contacts. Nature 411 (2001) 907-908
-
(2001)
Nature
, vol.411
, pp. 907-908
-
-
Liljeros, F.1
Edling, C.R.2
Amaral, L.A.N.3
Stanley, H.E.4
Åberg, Y.5
-
26
-
-
34547953707
-
-
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
-
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
-
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
-
-
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
-
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
-
31
-
-
33847064282
-
Comprehensive curation and analysis of global interaction networks in Saccharomyces Cerevisia
-
Reguly T., Breitkreutz A., Boucher L., Breitkreutz B.-J., Hon G.C., Myers C.L., Parsons A., Friesen H., Oughtred R., Tong A., Stark C., Ho Y., Botstein D., Andrews B., Boone C., Troyanskya O.G., Ideker T., Dolinski K., Batada N.N., and Tyers M. Comprehensive curation and analysis of global interaction networks in Saccharomyces Cerevisia. J. Biol. 5 (2006) 11
-
(2006)
J. Biol.
, vol.5
, pp. 11
-
-
Reguly, T.1
Breitkreutz, A.2
Boucher, L.3
Breitkreutz, B.-J.4
Hon, G.C.5
Myers, C.L.6
Parsons, A.7
Friesen, H.8
Oughtred, R.9
Tong, A.10
Stark, C.11
Ho, Y.12
Botstein, D.13
Andrews, B.14
Boone, C.15
Troyanskya, O.G.16
Ideker, T.17
Dolinski, K.18
Batada, N.N.19
Tyers, M.20
more..
-
32
-
-
54949146151
-
-
W. Richards, International network for social network analysis, 2005. .
-
W. Richards, International network for social network analysis, 2005. .
-
-
-
-
33
-
-
54949094426
-
-
W. Richards, Links to software for network analysis, 2005. .
-
W. Richards, Links to software for network analysis, 2005. .
-
-
-
-
34
-
-
27144530248
-
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
-
35
-
-
0347755535
-
DIP: the database of interacting proteins: 2004 update
-
Salwinski L., Miller C.S., Smith A.J., Pettit F.K., Bowie J.U., and Eisenberg D. DIP: the database of interacting proteins: 2004 update. Nucleic Acids Res. 32 (2004) D449-D451
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Salwinski, L.1
Miller, C.S.2
Smith, A.J.3
Pettit, F.K.4
Bowie, J.U.5
Eisenberg, D.6
-
37
-
-
0242490780
-
Cytoscape: a software environment for integrated models of biomolecular interaction networks
-
Shannon P., Markiel A., Ozier O., Baliga N.S., Wang J.T., Ramage D., Amin N., Schwikowski B., and Ideker T. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13 11 (2003) 2498-2504
-
(2003)
Genome Res.
, vol.13
, Issue.11
, pp. 2498-2504
-
-
Shannon, P.1
Markiel, A.2
Ozier, O.3
Baliga, N.S.4
Wang, J.T.5
Ramage, D.6
Amin, N.7
Schwikowski, B.8
Ideker, T.9
-
38
-
-
0002638056
-
A model for large-scale proteome evolution
-
Sole R.V., Pastor-Satorras R., Smith E., and Kepler T.B. A model for large-scale proteome evolution. Adv. Compl. Syst. 5 1 (2002) 43-54
-
(2002)
Adv. Compl. Syst.
, vol.5
, Issue.1
, pp. 43-54
-
-
Sole, R.V.1
Pastor-Satorras, R.2
Smith, E.3
Kepler, T.B.4
-
39
-
-
10744230485
-
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
-
40
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
-
Uetz P., Giot L., Cagney G., Mansfield T.A., Judson R.S., Knight J.R., Lockshon D., Narayan V., Srinivasan M., Pochart P., Qureshi-Emili A., Li Y., Godwin B., Conover D., Kalbfleisch T., Vijayadamodar G., Yang M., Johnston M., Fields S., and Rothberg J.M. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403 (2000) 623-627
-
(2000)
Nature
, vol.403
, pp. 623-627
-
-
Uetz, P.1
Giot, L.2
Cagney, G.3
Mansfield, T.A.4
Judson, R.S.5
Knight, J.R.6
Lockshon, D.7
Narayan, V.8
Srinivasan, M.9
Pochart, P.10
Qureshi-Emili, A.11
Li, Y.12
Godwin, B.13
Conover, D.14
Kalbfleisch, T.15
Vijayadamodar, G.16
Yang, M.17
Johnston, M.18
Fields, S.19
Rothberg, J.M.20
more..
-
41
-
-
0038699587
-
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
-
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
|