-
1
-
-
0038483826
-
Emergence of Scaling in Random Networks
-
10.1126/science.286.5439.509, 10521342
-
Barabasi A, Albert R. Emergence of Scaling in Random Networks. Science 1999, 286:509-512. 10.1126/science.286.5439.509, 10521342.
-
(1999)
Science
, vol.286
, pp. 509-512
-
-
Barabasi, A.1
Albert, R.2
-
2
-
-
0037174670
-
Network motifs: simple building blocks of complex networks
-
10.1126/science.298.5594.824, 12399590
-
Milo R, Shen-Orr SS, Itzkovitz S, Kashtan N, Chklovskii D, Alon U. Network motifs: simple building blocks of complex networks. Science 2002, 298:824-827. 10.1126/science.298.5594.824, 12399590.
-
(2002)
Science
, vol.298
, pp. 824-827
-
-
Milo, R.1
Shen-Orr, S.S.2
Itzkovitz, S.3
Kashtan, N.4
Chklovskii, D.5
Alon, U.6
-
3
-
-
1542287343
-
Superfamilies of Evolved and Designed Networks
-
10.1126/science.1089167, 15001784
-
Milo R, Itzkovitz S, Kashtan N, Levitt R, Shen-Orr S, Ayzenshtat I, Sheffer M, Alon U. Superfamilies of Evolved and Designed Networks. Science 2004, 303:1538-1542. 10.1126/science.1089167, 15001784.
-
(2004)
Science
, vol.303
, pp. 1538-1542
-
-
Milo, R.1
Itzkovitz, S.2
Kashtan, N.3
Levitt, R.4
Shen-Orr, S.5
Ayzenshtat, I.6
Sheffer, M.7
Alon, U.8
-
4
-
-
12344273375
-
Modeling Interactome: Scale-Free or Geometric?
-
Pržulj N, Corneil D, Jurisica I. Modeling Interactome: Scale-Free or Geometric?. Bioinformatics 2004, 20:3508-3515.
-
(2004)
Bioinformatics
, vol.20
, pp. 3508-3515
-
-
Pržulj, N.1
Corneil, D.2
Jurisica, I.3
-
5
-
-
24044488288
-
Alignment of metabolic pathways
-
10.1093/bioinformatics/bti554, 15985496
-
Pinter RY, Rokhlenko O, Yeger-Lotem E, Ziv-Ukelson M. Alignment of metabolic pathways. Bioinformatics 2005, 21(16):3401-3408. 10.1093/bioinformatics/bti554, 15985496.
-
(2005)
Bioinformatics
, vol.21
, Issue.16
, pp. 3401-3408
-
-
Pinter, R.Y.1
Rokhlenko, O.2
Yeger-Lotem, E.3
Ziv-Ukelson, M.4
-
6
-
-
49649109285
-
Uncovering Biological Network Function via Graphlet Degree Signatures
-
Epub 2008 Apr 14, 2623288, 19259413
-
Milenković T, Pržulj N. Uncovering Biological Network Function via Graphlet Degree Signatures. Cancer Inform 2008, 6:257-273. Epub 2008 Apr 14, 2623288, 19259413.
-
(2008)
Cancer Inform
, vol.6
, pp. 257-273
-
-
Milenković, T.1
Pržulj, N.2
-
7
-
-
27744568481
-
The Plasmodium protein network diverges from those of other eukaryotes
-
10.1038/nature04135, 2830740, 16267557
-
Suthram S, Sittler T, Ideker T. The Plasmodium protein network diverges from those of other eukaryotes. Nature 2005, 438(7064):108-12. 10.1038/nature04135, 2830740, 16267557.
-
(2005)
Nature
, vol.438
, Issue.7064
, pp. 108-112
-
-
Suthram, S.1
Sittler, T.2
Ideker, T.3
-
8
-
-
0033974688
-
Toward a protein-protein interaction map of the budding yeast: A comprehensive system to examine two-hybrid interactions in all possible combinations between the yeast proteins
-
10.1073/pnas.97.3.1143, 15550, 10655498
-
Ito T, Tashiro K, Muta S, Ozawa R, Chiba T, Nishizawa M, Yamamoto K, Kuhara S, Sakaki Y. Toward a protein-protein interaction map of the budding yeast: A comprehensive system to examine two-hybrid interactions in all possible combinations between the yeast proteins. Proc Natl Acad Sci USA 2000, 97(3):1143-1147. 10.1073/pnas.97.3.1143, 15550, 10655498.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, Issue.3
, pp. 1143-1147
-
-
Ito, T.1
Tashiro, K.2
Muta, S.3
Ozawa, R.4
Chiba, T.5
Nishizawa, M.6
Yamamoto, K.7
Kuhara, S.8
Sakaki, Y.9
-
9
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
-
10.1038/35001009, 10688190
-
Uetz P, Giot L, Cagney G, Mansfield T, Judson R, Knight J, Lockshon E, Narayan V, Srinivasan M, Pochart P, Qureshi-Emili A, Li Y, Godwin B, Conover D, Kalbfleish T, Vijayadamodar G, Yang M, Johnston M, Fields S, Rothberg J. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 2000, 403:623-627. 10.1038/35001009, 10688190.
-
(2000)
Nature
, vol.403
, pp. 623-627
-
-
Uetz, P.1
Giot, L.2
Cagney, G.3
Mansfield, T.4
Judson, R.5
Knight, J.6
Lockshon, E.7
Narayan, V.8
Srinivasan, M.9
Pochart, P.10
Qureshi-Emili, A.11
Li, Y.12
Godwin, B.13
Conover, D.14
Kalbfleish, T.15
Vijayadamodar, G.16
Yang, M.17
Johnston, M.18
Fields, S.19
Rothberg, J.20
more..
-
10
-
-
33644555054
-
Proteome survey reveals modularity of the yeast cell machinery
-
10.1038/nature04532, 16429126
-
Gavin AC, Aloy P, Grandi P, Krause R, Boesche M, Marzioch M, Rau C, Jensen L, Bastuck S, Dimpelfeld B, Edelmann A, Heurtier MA, Ho man V, Hoefert C, Klein K, Hudak M, Michon AM, Schelder M, Schirle M, Remor M, Rudi T, Hooper S, Bauer A, Bouwmeester T, Casari G, Drewes G, Neubauer G, Rick J, Kuster B, Bork P, Russell R, Superti-Furga G. Proteome survey reveals modularity of the yeast cell machinery. Nature 2006, 440:631-636. 10.1038/nature04532, 16429126.
-
(2006)
Nature
, vol.440
, pp. 631-636
-
-
Gavin, A.C.1
Aloy, P.2
Grandi, P.3
Krause, R.4
Boesche, M.5
Marzioch, M.6
Rau, C.7
Jensen, L.8
Bastuck, S.9
Dimpelfeld, B.10
Edelmann, A.11
Heurtier, M.A.12
Ho man, V.13
Hoefert, C.14
Klein, K.15
Hudak, M.16
Michon, A.M.17
Schelder, M.18
Schirle, M.19
Remor, M.20
Rudi, T.21
Hooper, S.22
Bauer, A.23
Bouwmeester, T.24
Casari, G.25
Drewes, G.26
Neubauer, G.27
Rick, J.28
Kuster, B.29
Bork, P.30
Russell, R.31
Superti-Furga, G.32
more..
-
11
-
-
0345600247
-
A protein interaction map of Drosophila melanogaster
-
10.1126/science.1090289, 14605208
-
Giot L, Bader J, Brouwer C, Chaudhuri A, Kuang B, Li Y, Hao Y, Ooi C, Godwin B, Vitols E, Vijayadamodar G, Pochart P, Machineni H, Welsh M, Kong Y, Zerhusen B, Malcolm R, Varrone Z, Collis A, Minto M, Burgess S, McDaniel L, Stimpson E, Spriggs F, Williams J, Neurath K, Ioime N, Agee M, Voss E, Furtak K, Renzulli R, Aanensen N, Carrolla S, Bickelhaupt E, Lazovatsky Y, DaSilva A, Zhong J, Stanyon C, Finley R, White K, Braverman M, Jarvie T, Gold S, Leach M, Knight J, Shimkets R, McKenna M, Chant J, Rothberg J. A protein interaction map of Drosophila melanogaster. Science 2003, 302:1727-1736. 10.1126/science.1090289, 14605208.
-
(2003)
Science
, vol.302
, pp. 1727-1736
-
-
Giot, L.1
Bader, J.2
Brouwer, C.3
Chaudhuri, A.4
Kuang, B.5
Li, Y.6
Hao, Y.7
Ooi, C.8
Godwin, B.9
Vitols, E.10
Vijayadamodar, G.11
Pochart, P.12
Machineni, H.13
Welsh, M.14
Kong, Y.15
Zerhusen, B.16
Malcolm, R.17
Varrone, Z.18
Collis, A.19
Minto, M.20
Burgess, S.21
McDaniel, L.22
Stimpson, E.23
Spriggs, F.24
Williams, J.25
Neurath, K.26
Ioime, N.27
Agee, M.28
Voss, E.29
Furtak, K.30
Renzulli, R.31
Aanensen, N.32
Carrolla, S.33
Bickelhaupt, E.34
Lazovatsky, Y.35
DaSilva, A.36
Zhong, J.37
Stanyon, C.38
Finley, R.39
White, K.40
Braverman, M.41
Jarvie, T.42
Gold, S.43
Leach, M.44
Knight, J.45
Shimkets, R.46
McKenna, M.47
Chant, J.48
Rothberg, J.49
more..
-
12
-
-
9144264169
-
A Map of the Interactome Network of the Metazoan C. elegans
-
10.1126/science.1091403, 1698949, 14704431
-
Li S, Armstrong C, Bertin N, Ge H, Milstein S, Boxem M, Vidalain PO, Han JD, Chesneau A, Hao T, Goldberg D, Li N, Martinez M, Rual JF, Lamesch P, Xu L, Tewari M, Wong S, Zhang L, Berriz G, Jacotot L, Vaglio P, Reboul J, Hirozane-Kishikawa T, Li Q, Gabel H, Elewa A, Baumgartner B, Rose D, Yu H, Bosak S, Sequerra R, Fraser A, Mango S, Saxton W, Strome S, van den Heuvel S, Piano F, Vandenhaute J, Sardet C, Gerstein M, Doucette-Stamm L, Gunsalus K, Harper J, Cusick M, Roth F, Hill D, Vidal M. A Map of the Interactome Network of the Metazoan C. elegans. Science 2004, 303:540-543. 10.1126/science.1091403, 1698949, 14704431.
-
(2004)
Science
, vol.303
, pp. 540-543
-
-
Li, S.1
Armstrong, C.2
Bertin, N.3
Ge, H.4
Milstein, S.5
Boxem, M.6
Vidalain, P.O.7
Han, J.D.8
Chesneau, A.9
Hao, T.10
Goldberg, D.11
Li, N.12
Martinez, M.13
Rual, J.F.14
Lamesch, P.15
Xu, L.16
Tewari, M.17
Wong, S.18
Zhang, L.19
Berriz, G.20
Jacotot, L.21
Vaglio, P.22
Reboul, J.23
Hirozane-Kishikawa, T.24
Li, Q.25
Gabel, H.26
Elewa, A.27
Baumgartner, B.28
Rose, D.29
Yu, H.30
Bosak, S.31
Sequerra, R.32
Fraser, A.33
Mango, S.34
Saxton, W.35
Strome, S.36
van den Heuvel, S.37
Piano, F.38
Vandenhaute, J.39
Sardet, C.40
Gerstein, M.41
Doucette-Stamm, L.42
Gunsalus, K.43
Harper, J.44
Cusick, M.45
Roth, F.46
Hill, D.47
Vidal, M.48
more..
-
13
-
-
25144498379
-
A Human Protein-Protein Interaction Network: A Resource for Annotating the Proteome
-
10.1016/j.cell.2005.08.029, 16169070
-
Stelzl U, Worm U, Lalowski M, Haenig C, Brembeck F, Goehler H, Stroedicke M, Zenkner M, Schoenherr A, Koeppen S, Timm J, Mintzla S, Abraham C, Bock N, Kietzmann S, Goedde A, Toksoz E, Droege A, Krobitsch S, Korn B, Birchmeier W, Lehrach H, Wanker E. A Human Protein-Protein Interaction Network: A Resource for Annotating the Proteome. Cell 2005, 122:957-968. 10.1016/j.cell.2005.08.029, 16169070.
-
(2005)
Cell
, vol.122
, pp. 957-968
-
-
Stelzl, U.1
Worm, U.2
Lalowski, M.3
Haenig, C.4
Brembeck, F.5
Goehler, H.6
Stroedicke, M.7
Zenkner, M.8
Schoenherr, A.9
Koeppen, S.10
Timm, J.11
Mintzla, S.12
Abraham, C.13
Bock, N.14
Kietzmann, S.15
Goedde, A.16
Toksoz, E.17
Droege, A.18
Krobitsch, S.19
Korn, B.20
Birchmeier, W.21
Lehrach, H.22
Wanker, E.23
more..
-
14
-
-
27144530248
-
Towards a proteome-scale map of the human protein-protein interaction network
-
10.1038/nature04209, 16189514
-
Rual J, Venkatesan K, Hao T, Hirozane-Kishikawa T, Dricot A, Li N, Berriz G, Gibbons F, Dreze M, Ayivi-Guedehoussou N, Klitgord N, Simon C, Boxem M, Milstein S, Rosenberg J, Goldberg D, Zhang L, Wong S, Franklin G, Li S, Albala J, Lim J, Fraughton C, Llamosas E, Cevik S, Bex C, Sikorski R, Vandenhaute J, Zoghbi H, Smolyar A, Bosak S, Sequerra R, Doucette-Stamm L, Cusick M, Hill D, Roth F, Vidal M. Towards a proteome-scale map of the human protein-protein interaction network. Nature 2005, 437:1173-1178. 10.1038/nature04209, 16189514.
-
(2005)
Nature
, vol.437
, pp. 1173-1178
-
-
Rual, J.1
Venkatesan, K.2
Hao, T.3
Hirozane-Kishikawa, T.4
Dricot, A.5
Li, N.6
Berriz, G.7
Gibbons, F.8
Dreze, M.9
Ayivi-Guedehoussou, N.10
Klitgord, N.11
Simon, C.12
Boxem, M.13
Milstein, S.14
Rosenberg, J.15
Goldberg, D.16
Zhang, L.17
Wong, S.18
Franklin, G.19
Li, S.20
Albala, J.21
Lim, J.22
Fraughton, C.23
Llamosas, E.24
Cevik, S.25
Bex, C.26
Sikorski, R.27
Vandenhaute, J.28
Zoghbi, H.29
Smolyar, A.30
Bosak, S.31
Sequerra, R.32
Doucette-Stamm, L.33
Cusick, M.34
Hill, D.35
Roth, F.36
Vidal, M.37
more..
-
15
-
-
33645453254
-
Global landscape of protein complexes in the yeast Saccharomyces cerevisiae
-
10.1038/nature04670, 16554755
-
Krogan N, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis A, Punna T, Peregrin-Alvarez J, Shales M, Zhang X, Davey M, Robinson M, Paccanaro A, Bray J, Sheung A, Beattie B, Richards D, Canadien V, Lalev A, Mena F, Wong P, Starostine A, Canete M, Vlasblom J, Wu S, Orsi C, Collins S, Chandran S, Haw R, Rilstone J, Gandi K, Thompson N, Musso G, St Onge P, Ghanny S, Lam M, Butland G, Altaf-Ul A, Kanaya S, Shilatifard A, O'Shea E, Weissman J, Ingles C, Hughes T, Parkinson J, Gerstein M, Wodak S, Emili A, Greenblatt J. Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 2006, 440:637-643. 10.1038/nature04670, 16554755.
-
(2006)
Nature
, vol.440
, pp. 637-643
-
-
Krogan, N.1
Cagney, G.2
Yu, H.3
Zhong, G.4
Guo, X.5
Ignatchenko, A.6
Li, J.7
Pu, S.8
Datta, N.9
Tikuisis, A.10
Punna, T.11
Peregrin-Alvarez, J.12
Shales, M.13
Zhang, X.14
Davey, M.15
Robinson, M.16
Paccanaro, A.17
Bray, J.18
Sheung, A.19
Beattie, B.20
Richards, D.21
Canadien, V.22
Lalev, A.23
Mena, F.24
Wong, P.25
Starostine, A.26
Canete, M.27
Vlasblom, J.28
Wu, S.29
Orsi, C.30
Collins, S.31
Chandran, S.32
Haw, R.33
Rilstone, J.34
Gandi, K.35
Thompson, N.36
Musso, G.37
St Onge, P.38
Ghanny, S.39
Lam, M.40
Butland, G.41
Altaf-Ul, A.42
Kanaya, S.43
Shilatifard, A.44
O'Shea, E.45
Weissman, J.46
Ingles, C.47
Hughes, T.48
Parkinson, J.49
Gerstein, M.50
Wodak, S.51
Emili, A.52
Greenblatt, J.53
more..
-
16
-
-
34147121646
-
Toward a Comprehensive Atlas of the Physical Interactome of Saccharomyces cerevisiae
-
10.1074/mcp.M600381-MCP200, 17200106
-
Collins S, Kemmeren P, Zhao X, Greenblatt J, Spencer F, Holstege F, Weissman J, Krogan N. Toward a Comprehensive Atlas of the Physical Interactome of Saccharomyces cerevisiae. Molecular and Cellular Proteomics 2007, 6(3):439-450. 10.1074/mcp.M600381-MCP200, 17200106.
-
(2007)
Molecular and Cellular Proteomics
, vol.6
, Issue.3
, pp. 439-450
-
-
Collins, S.1
Kemmeren, P.2
Zhao, X.3
Greenblatt, J.4
Spencer, F.5
Holstege, F.6
Weissman, J.7
Krogan, N.8
-
17
-
-
58149218155
-
Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network
-
10.1038/nmeth.1279, 19123269
-
Simonis N, Rual JF, Carvunis AR, Tasan M, Lemmens I, Hirozane-Kishikawa T, Hao T, Sahalie JM, Venkatesan K, Gebreab F, Cevik S, Klitgord N, Fan C, Braun P, Li N, Ayivi-Guedehoussou N, Dann E, Bertin N, Szeto D, Dricot A, Yildirim MA, Lin C, Smet ASD, Kao HL, Simon C, Smolyar A, Ahn JS, Tewari M, amd Stuart Milstein MB, Yu H, Dreze M, Vandenhaute J, Gunsalus KC, Cusick ME, Hill DE, Tavernier J, Roth FP, Vidal M. Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network. Nature Methods 2009, 6:47-54. 10.1038/nmeth.1279, 19123269.
-
(2009)
Nature Methods
, vol.6
, pp. 47-54
-
-
Simonis, N.1
Rual, J.F.2
Carvunis, A.R.3
Tasan, M.4
Lemmens, I.5
Hirozane-Kishikawa, T.6
Hao, T.7
Sahalie, J.M.8
Venkatesan, K.9
Gebreab, F.10
Cevik, S.11
Klitgord, N.12
Fan, C.13
Braun, P.14
Li, N.15
Ayivi-Guedehoussou, N.16
Dann, E.17
Bertin, N.18
Szeto, D.19
Dricot, A.20
Yildirim, M.A.21
Lin, C.22
Smet, A.S.D.23
Kao, H.L.24
Simon, C.25
Smolyar, A.26
Ahn, J.S.27
Tewari, M.28
amd Stuart Milstein, M.B.29
Yu, H.30
Dreze, M.31
Vandenhaute, J.32
Gunsalus, K.C.33
Cusick, M.E.34
Hill, D.E.35
Tavernier, J.36
Roth, F.P.37
Vidal, M.38
more..
-
18
-
-
70349677166
-
Evolutionarily Conserved Herpesviral Protein Interaction Networks
-
10.1371/journal.ppat.1000570, 2731838, 19730696
-
Fossum E, Friedel CC, Rajagopala SV, Titz B, Baiker A, Schmidt T, Kraus T, Stellberger T, Rutenberg C, Suthram S, Bandyopadhyay S, Rose D, von Brunn A, Uhlmann M, Zeretzke C, Dong YA, Boulet H, Koegl M, Bailer SM, Koszinowski U, Ideker T, Uetz P, Zimmer R, Haas J. Evolutionarily Conserved Herpesviral Protein Interaction Networks. PLoS Pathog 2009, 5(9):e1000570. 10.1371/journal.ppat.1000570, 2731838, 19730696.
-
(2009)
PLoS Pathog
, vol.5
, Issue.9
-
-
Fossum, E.1
Friedel, C.C.2
Rajagopala, S.V.3
Titz, B.4
Baiker, A.5
Schmidt, T.6
Kraus, T.7
Stellberger, T.8
Rutenberg, C.9
Suthram, S.10
Bandyopadhyay, S.11
Rose, D.12
von Brunn, A.13
Uhlmann, M.14
Zeretzke, C.15
Dong, Y.A.16
Boulet, H.17
Koegl, M.18
Bailer, S.M.19
Koszinowski, U.20
Ideker, T.21
Uetz, P.22
Zimmer, R.23
Haas, J.24
more..
-
20
-
-
0013173298
-
Modeling of Protein Interaction Networks
-
Vazqueza A, Flamminia A, Maritana A, Vespignani A. Modeling of Protein Interaction Networks. Complexus 2003, 1:38-44.
-
(2003)
Complexus
, vol.1
, pp. 38-44
-
-
Vazqueza, A.1
Flamminia, A.2
Maritana, A.3
Vespignani, A.4
-
21
-
-
77956575603
-
Geometric Evolutionary Dynamics of Protein Interaction Networks
-
Pržulj N, Kuchaiev O, Stevanovic A, Hayes W. Geometric Evolutionary Dynamics of Protein Interaction Networks. Proceedings of the Pacific Symposium on Biocomputing Big Island, Hawaii 2010, 178-89.
-
(2010)
Proceedings of the Pacific Symposium on Biocomputing Big Island, Hawaii
, pp. 178-189
-
-
Pržulj, N.1
Kuchaiev, O.2
Stevanovic, A.3
Hayes, W.4
-
22
-
-
77956576710
-
Topological network alignment uncovers biological function and phylogeny
-
Kuchaiev O, Milenković T, Memisević V, Hayes W, Pržulj N. Topological network alignment uncovers biological function and phylogeny. Journal of the Royal Society Interface 2010, 7(50):1341-54.
-
(2010)
Journal of the Royal Society Interface
, vol.7
, Issue.50
, pp. 1341-1354
-
-
Kuchaiev, O.1
Milenković, T.2
Memisević, V.3
Hayes, W.4
Pržulj, N.5
-
23
-
-
0242490780
-
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
-
10.1101/gr.1239303, 403769, 14597658
-
Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T. Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks. Genome Research 2003, 13(11):2498-2504. 10.1101/gr.1239303, 403769, 14597658.
-
(2003)
Genome Research
, 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
-
24
-
-
2942609149
-
VisANT: an online visualization and analysis tool for biological interaction data
-
10.1186/1471-2105-5-17, 368431, 15028117
-
Hu Z, Mellor J, Wu J, DeLisi C. VisANT: an online visualization and analysis tool for biological interaction data. BMC Bioinformatics 2004, 5:17. 10.1186/1471-2105-5-17, 368431, 15028117.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 17
-
-
Hu, Z.1
Mellor, J.2
Wu, J.3
DeLisi, C.4
-
25
-
-
1242264487
-
TopNet: a tool for comparing biological sub-networks, correlating protein properties with topological statistics
-
10.1093/nar/gkh164, 373274, 14724320
-
Yu H, Zhu X, Greenbaum D, Karro J, Gerstein M. TopNet: a tool for comparing biological sub-networks, correlating protein properties with topological statistics. Nucl Acids Res 2004, 32:328-337. 10.1093/nar/gkh164, 373274, 14724320.
-
(2004)
Nucl Acids Res
, vol.32
, pp. 328-337
-
-
Yu, H.1
Zhu, X.2
Greenbaum, D.3
Karro, J.4
Gerstein, M.5
-
26
-
-
33751375646
-
The tYNA platform for comparative interactomics: a web tool for managing, comparing and mining multiple networks
-
10.1093/bioinformatics/btl488, 17021160
-
Yip KY, Yu H, Kim PM, Schultz M, Gerstein M. The tYNA platform for comparative interactomics: a web tool for managing, comparing and mining multiple networks. Bioinformatics 2006, 22(23):2968-2970. 10.1093/bioinformatics/btl488, 17021160.
-
(2006)
Bioinformatics
, vol.22
, Issue.23
, pp. 2968-2970
-
-
Yip, K.Y.1
Yu, H.2
Kim, P.M.3
Schultz, M.4
Gerstein, M.5
-
27
-
-
24144495559
-
MAVisto: a tool for the exploration of network motifs
-
10.1093/bioinformatics/bti556, 16020473
-
Schreiber F, Schwobbermeyer H. MAVisto: a tool for the exploration of network motifs. Bioinformatics 2005, 21(17):3572-3574. 10.1093/bioinformatics/bti556, 16020473.
-
(2005)
Bioinformatics
, vol.21
, Issue.17
, pp. 3572-3574
-
-
Schreiber, F.1
Schwobbermeyer, H.2
-
28
-
-
33646153295
-
FANMOD: a tool for fast network motif detection
-
10.1093/bioinformatics/btl038, 16455747
-
Wernicke S, Rasche F. FANMOD: a tool for fast network motif detection. Bioinformatics 2006, 22(9):1152-1153. 10.1093/bioinformatics/btl038, 16455747.
-
(2006)
Bioinformatics
, vol.22
, Issue.9
, pp. 1152-1153
-
-
Wernicke, S.1
Rasche, F.2
-
30
-
-
4444268694
-
Efficient sampling algorithm for estimating subgraph concentrations and detecting network motifs
-
10.1093/bioinformatics/bth163, 15001476
-
Kashtan N, Itzkovitz S, Milo R, Alon U. Efficient sampling algorithm for estimating subgraph concentrations and detecting network motifs. Bioinformatics 2004, 20(11):1746-1758. 10.1093/bioinformatics/bth163, 15001476.
-
(2004)
Bioinformatics
, vol.20
, Issue.11
, pp. 1746-1758
-
-
Kashtan, N.1
Itzkovitz, S.2
Milo, R.3
Alon, U.4
-
31
-
-
33846672214
-
Biological Network Comparison Using Graphlet Degree Distribution
-
Pržulj N. Biological Network Comparison Using Graphlet Degree Distribution. Bioinformatics 2007, 20:e177-e183.
-
(2007)
Bioinformatics
, vol.20
-
-
Pržulj, N.1
-
32
-
-
3442886313
-
PathBLAST: a tool for alignment of protein interaction networks
-
Kelley BP, Bingbing Y, Lewitter F, Sharan R, Stockwell BR, Ideker T. PathBLAST: a tool for alignment of protein interaction networks. Nucl Acids Res 2004, 32:83-88.
-
(2004)
Nucl Acids Res
, vol.32
, pp. 83-88
-
-
Kelley, B.P.1
Bingbing, Y.2
Lewitter, F.3
Sharan, R.4
Stockwell, B.R.5
Ideker, T.6
-
33
-
-
6944240088
-
Local graph alignment and motif search in biological networks
-
10.1073/pnas.0305199101, 522014, 15448202
-
Berg J, Lassig M. Local graph alignment and motif search in biological networks. PNAS 2004, 101:14689-14694. 10.1073/pnas.0305199101, 522014, 15448202.
-
(2004)
PNAS
, vol.101
, pp. 14689-14694
-
-
Berg, J.1
Lassig, M.2
-
34
-
-
33748257786
-
Graemlin: General and robust alignment of multiple large interaction networks
-
10.1101/gr.5235706, 1557769, 16899655
-
Flannick J, Novak A, Srinivasan BS, McAdams HH, Batzoglou S. Graemlin: General and robust alignment of multiple large interaction networks. Genome Res 2006, 16(9):1169-1181. 10.1101/gr.5235706, 1557769, 16899655.
-
(2006)
Genome Res
, vol.16
, Issue.9
, pp. 1169-1181
-
-
Flannick, J.1
Novak, A.2
Srinivasan, B.S.3
McAdams, H.H.4
Batzoglou, S.5
-
35
-
-
33746616867
-
Cross-species analysis of biological networks by Bayesian alignment
-
Berg J, Lassig M. Cross-species analysis of biological networks by Bayesian alignment. Proceedings of the National Academy of Sciences 2006, 103(29):10967-10972.
-
(2006)
Proceedings of the National Academy of Sciences
, vol.103
, Issue.29
, pp. 10967-10972
-
-
Berg, J.1
Lassig, M.2
-
36
-
-
34547416529
-
Pairwise Global Alignment of Protein Interaction Networks by Matching Neighborhood Topology
-
Springer
-
Singh R, Xu J, Berger B. Pairwise Global Alignment of Protein Interaction Networks by Matching Neighborhood Topology. Research in Computational Molecular Biology 2007, 16-31. Springer.
-
(2007)
Research in Computational Molecular Biology
, pp. 16-31
-
-
Singh, R.1
Xu, J.2
Berger, B.3
-
37
-
-
66349109783
-
Global alignment of protein-protein interaction networks by graph matching methods
-
10.1093/bioinformatics/btp196, 2687950, 19477997
-
Zaslavskiy M, Bach F, Vert JP. Global alignment of protein-protein interaction networks by graph matching methods. Bioinformatics 2009, 25(12):i259-i267. 10.1093/bioinformatics/btp196, 2687950, 19477997.
-
(2009)
Bioinformatics
, vol.25
, Issue.12
-
-
Zaslavskiy, M.1
Bach, F.2
Vert, J.P.3
-
38
-
-
77955499935
-
Optimal network alignment with graphlet degree vectors
-
2901631, 20628593
-
Milenković T, Leong Ng W, Hayes W, Pržulj N. Optimal network alignment with graphlet degree vectors. Cancer Informatics 2010, 9:121-137. 2901631, 20628593.
-
(2010)
Cancer Informatics
, vol.9
, pp. 121-137
-
-
Milenković, T.1
Leong Ng, W.2
Hayes, W.3
Pržulj, N.4
-
39
-
-
70049106408
-
Geometric de-noising of protein-protein interaction networks
-
10.1371/journal.pcbi.1000454, 2711306, 19662157
-
Kuchaiev O, Rašajski M, Higham DJ, Pržulj N. Geometric de-noising of protein-protein interaction networks. PLoS Computational Biology 2009, 5:e1000454. 10.1371/journal.pcbi.1000454, 2711306, 19662157.
-
(2009)
PLoS Computational Biology
, vol.5
-
-
Kuchaiev, O.1
Rašajski, M.2
Higham, D.J.3
Pržulj, N.4
-
42
-
-
33750630691
-
Modelling protein-protein interaction networks via a stickiness index
-
Pržulj N, Higham D. Modelling protein-protein interaction networks via a stickiness index. Journal of the Royal Society Interface 2006, 3(10):711-716.
-
(2006)
Journal of the Royal Society Interface
, vol.3
, Issue.10
, pp. 711-716
-
-
Pržulj, N.1
Higham, D.2
-
44
-
-
0038718854
-
The structure and function of complex networks
-
Newman MEJ. The structure and function of complex networks. SIAM Review 2003, 45:167.
-
(2003)
SIAM Review
, vol.45
, pp. 167
-
-
Newman, M.E.J.1
-
46
-
-
13844314048
-
Conserved patterns of protein interaction in multiple species
-
10.1073/pnas.0409522102, 548573, 15687504
-
Sharan R, Suthram S, Kelley RM, Kuhn T, McCuine S, Uetz P, Sittler T, Karp RM, Ideker T. Conserved patterns of protein interaction in multiple species. Proceedings of the National Academy of Sciences of the United States of America 2005, 102(6):1974-1979. 10.1073/pnas.0409522102, 548573, 15687504.
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.6
, pp. 1974-1979
-
-
Sharan, R.1
Suthram, S.2
Kelley, R.M.3
Kuhn, T.4
McCuine, S.5
Uetz, P.6
Sittler, T.7
Karp, R.M.8
Ideker, T.9
-
47
-
-
76049094356
-
Systems-level cancer gene identification from protein interaction network topology applied to melanogenesis-related functional genomics data
-
Milenkovic T, Memisevic V, Ganesan AK, Przulj N. Systems-level cancer gene identification from protein interaction network topology applied to melanogenesis-related functional genomics data. Journal of The Royal Society Interface 2010, 7(44):423-437.
-
(2010)
Journal of The Royal Society Interface
, vol.7
, Issue.44
, pp. 423-437
-
-
Milenkovic, T.1
Memisevic, V.2
Ganesan, A.K.3
Przulj, N.4
-
48
-
-
77953430024
-
Protein interaction network topology uncovers melanogenesis regulatory network components within functional genomics datasets
-
10.1186/1752-0509-4-84, 2904735, 20550706
-
Ho H, Milenkovic T, Memisevic V, Aruri J, Przulj N, Ganesan A. Protein interaction network topology uncovers melanogenesis regulatory network components within functional genomics datasets. BMC Systems Biology 2010, 4:84. 10.1186/1752-0509-4-84, 2904735, 20550706.
-
(2010)
BMC Systems Biology
, vol.4
, pp. 84
-
-
Ho, H.1
Milenkovic, T.2
Memisevic, V.3
Aruri, J.4
Przulj, N.5
Ganesan, A.6
-
50
-
-
0036529479
-
An efficient algorithm for large-scale detection of protein families
-
10.1093/nar/30.7.1575, 101833, 11917018
-
Enright A, Van Dongen S, Ouzounis C. An efficient algorithm for large-scale detection of protein families. Nucleic Acids Research 2002, 30(6):1575-1584. 10.1093/nar/30.7.1575, 101833, 11917018.
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.6
, pp. 1575-1584
-
-
Enright, A.1
Van Dongen, S.2
Ouzounis, C.3
-
51
-
-
77955802727
-
QT - Cross platform application and UI Framework
-
QT - Cross platform application and UI Framework. , http://qt.nokia.com/products
-
-
-
-
52
-
-
84888283664
-
QWT - Qt Widgets for Technical Applications
-
QWT - Qt Widgets for Technical Applications. , http://qwt.sourceforge.net/
-
-
-
-
53
-
-
47349128648
-
An integrated approach to inferring gene-disease associations in humans
-
10.1002/prot.21989, 2824611, 18300252
-
Radivojac P, Peng K, Clark WT, Peters BJ, Mohan A, Boyle SM, D MS. An integrated approach to inferring gene-disease associations in humans. Proteins 2008, 72(3):1030-7. 10.1002/prot.21989, 2824611, 18300252.
-
(2008)
Proteins
, vol.72
, Issue.3
, pp. 1030-1037
-
-
Radivojac, P.1
Peng, K.2
Clark, W.T.3
Peters, B.J.4
Mohan, A.5
Boyle, S.M.6
D, M.S.7
-
54
-
-
33645821972
-
Analyzing Large Biological Networks: Protein-Protein Interactions Example
-
University of Toronto, Canada
-
Pržulj N. Analyzing Large Biological Networks: Protein-Protein Interactions Example. PhD thesis 2005, University of Toronto, Canada.
-
(2005)
PhD thesis
-
-
Pržulj, N.1
-
55
-
-
0034069495
-
Gene Ontology: tool for the unification of biology
-
10.1038/75556, 10802651
-
Consortium GO. Gene Ontology: tool for the unification of biology. Nature Genetics 2000, 25:25-29. 10.1038/75556, 10802651.
-
(2000)
Nature Genetics
, vol.25
, pp. 25-29
-
-
Consortium, G.O.1
-
56
-
-
12344269924
-
GO::TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes
-
Boyle EI, Weng S, Gollub J, Jin H, Botstein D, Cherry JM, Sherlock G. GO::TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics 2004, 20.
-
(2004)
Bioinformatics
, vol.20
-
-
Boyle, E.I.1
Weng, S.2
Gollub, J.3
Jin, H.4
Botstein, D.5
Cherry, J.M.6
Sherlock, G.7
-
57
-
-
43749096790
-
Predicting cancer involvement of genes from heterogeneous data
-
10.1186/1471-2105-9-172, 2330045, 18371197
-
Aragues R, Sander C, Oliva B. Predicting cancer involvement of genes from heterogeneous data. BMC Bioinformatics 2008, 9. 10.1186/1471-2105-9-172, 2330045, 18371197.
-
(2008)
BMC Bioinformatics
, vol.9
-
-
Aragues, R.1
Sander, C.2
Oliva, B.3
|