-
1
-
-
84860029553
-
-
http://depts.washington.edu/sfields/yplm/data/new2h.html.
-
-
-
-
3
-
-
33751174659
-
Probabilistic methods for predicting protein functions in protein-protein inter-action networks
-
C. Best, R. Zimmer, and J. Apostolakis. Probabilistic methods for predicting protein functions in protein-protein inter-action networks. In German Conference on Bioinformatics, 2004.
-
(2004)
German Conference on Bioinformatics
-
-
Best, C.1
Zimmer, R.2
Apostolakis, J.3
-
4
-
-
2942544498
-
Protein interaction networks from yeast to human
-
P. Bork, L. J. Jensen, C. von Mering, A. K. Ramani, I. Lee, and E. M. Marcotte. Protein interaction networks from yeast to human. Curr Opin Struct Biol, 14:292-299, 2004.
-
(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
-
5
-
-
0033968614
-
The yeast proteome database (ypd) and caenorhabditis elegans proteome database (wormpd): Comprehensive resources for the organization and comparison of model organism protein information
-
M. C. Costanzo, J. D. Hogan, M. E. Cusick, B. P. Davis, A. M. Fancher, P. E. Hodges, P. Kondu, C. Lengieza, J. E. Lew-Smith, C. Lingner, K. J. Roberg-Perez, M. Tillberg, J. E. Brooks, and J. I. Carrels. The yeast proteome database (ypd) and caenorhabditis elegans proteome database (wormpd): comprehensive resources for the organization and comparison of model organism protein information. Nucleic Acids Res, 28:73-76, 2004.
-
(2004)
Nucleic Acids Res
, vol.28
, pp. 73-76
-
-
Costanzo, M.C.1
Hogan, J.D.2
Cusick, M.E.3
Davis, B.P.4
Fancher, A.M.5
Hodges, P.E.6
Kondu, P.7
Lengieza, C.8
Lew-Smith, J.E.9
Lingner, C.10
Roberg-Perez, K.J.11
Tillberg, M.12
Brooks, J.E.13
Carrels, J.I.14
-
6
-
-
0036799752
-
Inferring domain-domain interactions from protein-protein interactions
-
M. Deng, S. Mehta, F. Sun, and T. Chen. Inferring domain-domain interactions from protein-protein interactions. Genome Res., 12:1540-1548, 2002.
-
(2002)
Genome Res.
, vol.12
, pp. 1540-1548
-
-
Deng, M.1
Mehta, S.2
Sun, F.3
Chen, T.4
-
7
-
-
0035817637
-
A protein interaction map for cell polarity development
-
B. L. Drees, B. Sundin, E. Brazeau, J. P. Caviston, G. C. Chen, W. Guo, K. G. Kozminski, M. W. Lau, J. J. Moskow, A. Tong, L. R. Schenkman, r. McKenzie, A., P. Brennwald, M. Longtine, E. Bi, C. Chan, P. Novick, C. Boone, J. R. Pringle, T. N. Davis, S. Fields, and D. G. Drubin. A protein interaction map for cell polarity development. J Cell Biol, 154:549-571, 2001.
-
(2001)
J Cell Biol
, vol.154
, pp. 549-571
-
-
Drees, B.L.1
Sundin, B.2
Brazeau, E.3
Caviston, J.P.4
Chen, G.C.5
Guo, W.6
Kozminski, K.G.7
Lau, M.W.8
Moskow, J.J.9
Tong, A.10
Schenkman, L.R.11
McKenzie, R.12
Brennwald, A.P.13
Longtine, M.14
Bi, E.15
Chan, C.16
Novick, P.17
Boone, C.18
Pringle, J.R.19
Davis, T.N.20
Fields, S.21
Drubin, D.G.22
more..
-
8
-
-
0032441150
-
Cluster analysis and display of genome-wide expression patterns
-
M. Eisen, P. Spellman, P. Brown, and D. Botstein. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A., 95:14863-14868, 1998.
-
(1998)
Proc Natl Acad Sci U S A
, vol.95
, pp. 14863-14868
-
-
Eisen, M.1
Spellman, P.2
Brown, P.3
Botstein, D.4
-
9
-
-
33749199129
-
Genome-wide protein interaction screens reveal functional networks involving sm-like proteins
-
M. Fromont-Racine, A. E. Mayes, A. Brunet-Simon, J. C. Rain, A. Colley, I. Dix, L. Decourty, N. Joly, F. Ricard, J. D. Beggs, and P. Legrain. Genome-wide protein interaction screens reveal functional networks involving sm-like proteins. Yeast, 17:95-110, 2000.
-
(2000)
Yeast
, vol.17
, pp. 95-110
-
-
Fromont-Racine, M.1
Mayes, A.E.2
Brunet-Simon, A.3
Rain, J.C.4
Colley, A.5
Dix, I.6
Decourty, L.7
Joly, N.8
Ricard, F.9
Beggs, J.D.10
Legrain, P.11
-
10
-
-
0037050026
-
Functional organization of the yeast proteome by systematic analysis of protein complexes
-
A. C. Gavin, M. Bosche, R. Krause, P. Grandi, M. Marzioch, A. Bauer, J. Schultz, J. M. Rick, A. M. Michon, C. M. Cruciat, M. Remor, C. Hofert, M. Scheider, M. Brajenovic, H. Ruffner, A. Merino, K. Klein, M. Hudak, D. Dickson, T. Rudi, V. Gnau, A. Bauch, S. Bastuck, B. Huhse, C. Leutwein, M. A. Heurtier, R. R. Copley, A. Edelmann, E. Querfurth, V. Rybin, G. Drewes, M. Raida, T. Bouwmeester, P. Bork, B. Seraphin, B. Kuster, G. Neubauer, and G. Superti-Furga. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature, 415:141-147, 2002.
-
(2002)
Nature
, vol.415
, pp. 141-147
-
-
Gavin, A.C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
Bauer, A.6
Schultz, J.7
Rick, J.M.8
Michon, A.M.9
Cruciat, C.M.10
Remor, M.11
Hofert, C.12
Scheider, M.13
Brajenovic, M.14
Ruffner, H.15
Merino, A.16
Klein, K.17
Hudak, M.18
Dickson, D.19
Rudi, T.20
Gnau, V.21
Bauch, A.22
Bastuck, S.23
Huhse, B.24
Leutwein, C.25
Heurtier, M.A.26
Copley, R.R.27
Edelmann, A.28
Querfurth, E.29
Rybin, V.30
Drewes, G.31
Raida, M.32
Bouwmeester, T.33
Bork, P.34
Seraphin, B.35
Kuster, B.36
Neubauer, G.37
Superti-Furga, G.38
more..
-
11
-
-
0345600247
-
A protein interaction map of drosophila melanogaster
-
L. Giot, J. S. Bader, C. Brouwer, A. Chaudhuri, B. Kuang, Y. Li, Y. L. Hao, C. E. Ooi, B. Godwin, E. Vitols, G. Vijayadamodar, P. Pochart, H. Machineni, M. Welsh, Y. Kong, B. Zerhusen, R. Malcolm, Z. Varrone, A. Collis, M. Minto, S. Burgess, L. McDaniel, E. Stimpson, F. Spriggs, J. Williams, K. Neurath, N. Ioime, M. Agee, E. Voss, K. Furtak, R. Renzulli, N. Aanensen, S. Carrolla, E. Bickelhaupt, Y. Lazovatsky, A. DaSilva, J. Zhong, C. A. Stanyon, J. Finley, R. L., K. P. White, M. Braverman, T. Jarvie, S. Gold, M. Leach, J. Knight, R. A. Shimkets, M. P. McKenna, J. Chant, and J. M. Rothberg. A protein interaction map of drosophila melanogaster. Science, 302:1727-1736, 2003.
-
(2003)
Science
, vol.302
, pp. 1727-1736
-
-
Giot, L.1
Bader, J.S.2
Brouwer, C.3
Chaudhuri, A.4
Kuang, B.5
Li, Y.6
Hao, Y.L.7
Ooi, C.E.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.A.38
Finley, J.39
L., R.40
White, K.P.41
Braverman, M.42
Jarvie, T.43
Gold, S.44
Leach, M.45
Knight, J.46
Shimkets, R.A.47
McKenna, M.P.48
Chant, J.49
Rothberg, J.M.50
more..
-
12
-
-
33751181595
-
A scalable algorithm for clustering sequential data
-
V. Guralnik and G. Karypis. A scalable algorithm for clustering sequential data. In ICDM, pages 179-186, 2001.
-
(2001)
ICDM
, pp. 179-186
-
-
Guralnik, V.1
Karypis, G.2
-
13
-
-
0037050004
-
Systematic identification of protein complexes in saccharomyces cerevisiae by mass spectrometry
-
Y. Ho, A. Gruhler, A. Heilbut, G. D. Bader, L. Moore, S. L. Adams, A. Millar, P. Taylor, K. Bennett, K. Boutilier, L. Yang, C. Wolting, I. Donaldson, S. Schandorff, J. Shewnarane, M. Vo, J. Taggart, M. Goudreault, B. Muskat, C. Alfarano, D. Dewar, Z. Lin, K. Michalickova, A. R. Willems, H. Sassi, P. A. Nielsen, K. J. Rasmussen, J. R. Andersen, L. E. Johansen, L. H. Hansen, H. Jespersen, A. Podtelejnikov, E. Nielsen, J. Crawford, V. Poulsen, B. D. Sorensen, J. Matthiesen, R. C. Hendrickson, F. Gleeson, T. Pawson, M. F. Moran, D. Durocher, M. Mann, C. W. Hogue, D. Figeys, and M. Tyers. Systematic identification of protein complexes in saccharomyces cerevisiae by mass spectrometry. Nature, 415:180-183, 2002.
-
(2002)
Nature
, vol.415
, pp. 180-183
-
-
Ho, Y.1
Gruhler, A.2
Heilbut, A.3
Bader, G.D.4
Moore, L.5
Adams, S.L.6
Millar, A.7
Taylor, P.8
Bennett, K.9
Boutilier, K.10
Yang, L.11
Wolting, C.12
Donaldson, I.13
Schandorff, S.14
Shewnarane, J.15
Vo, M.16
Taggart, J.17
Goudreault, M.18
Muskat, B.19
Alfarano, C.20
Dewar, D.21
Lin, Z.22
Michalickova, K.23
Willems, A.R.24
Sassi, H.25
Nielsen, P.A.26
Rasmussen, K.J.27
Andersen, J.R.28
Johansen, L.E.29
Hansen, L.H.30
Jespersen, H.31
Podtelejnikov, A.32
Nielsen, E.33
Crawford, J.34
Poulsen, V.35
Sorensen, B.D.36
Matthiesen, J.37
Hendrickson, R.C.38
Gleeson, F.39
Pawson, T.40
Moran, M.F.41
Durocher, D.42
Mann, M.43
Hogue, C.W.44
Figeys, D.45
Tyers, M.46
more..
-
14
-
-
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
-
T. Ito, K. Tashiro, S. Muta, R. Ozawa, T. Chiba, M. Nishizawa, K. Yamamoto, S. Kuhara, and Y. Sakaki. 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, 93(3): 1143-1147, 2000.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.93
, 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
-
15
-
-
1542271409
-
Predicting protein function from protein/protein interaction data: A probabilistic approach
-
S. Letovsky and S. Kasif. Predicting protein function from protein/protein interaction data: a probabilistic approach. Bioinformatics, 19:1197-204, 2003.
-
(2003)
Bioinformatics
, vol.19
, pp. 1197-1204
-
-
Letovsky, S.1
Kasif, S.2
-
16
-
-
9144264169
-
A map of the interactome network of the metazoan c. elegans
-
S. Li, C. Armstrong, N. Bertin, H. Ge, S. Milstein, M. Boxem, P. Vidalain, J. Han, A. Chesneau, T. Hao, D. Goldberg, N. Li, M. Martinez, J. Rual, P. Lamesch, L. Xu, M. Tewari, S. Wong, L. Zhang, G. Berriz, L. Jacotot, P. Vaglio, J. Reboul, T. Hirozane-Kishikawa, Q. Li, H. Gabel, A. Elewa, B. Baumgartner, D. Rose, H. Yu, S. Bosak, R. Sequerra, A. Fraser, S. Mango, W. Saxton, S. Strome, S. Van Den Heuvel, F. Piano, J. Vandenhaute, C. Sardet, M. Gerstein, L. Doucette-Stamm, K. Gunsalus, J. Harper, M. Cusick, F. Roth, D. Hill, and M. Vidai. A map of the interactome network of the metazoan c. elegans. Science, 303:540-543, 2004.
-
(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.7
Han, J.8
Chesneau, A.9
Hao, T.10
Goldberg, D.11
Li, N.12
Martinez, M.13
Rual, J.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
Vidai, M.48
more..
-
17
-
-
0036081347
-
Mips: A database for genomes and protein sequences
-
H. W. Mewes, D. Frishman, U. Guldener, G. Mannhaupt, K. Mayer, M. Mokrejs, B. Morgenstern, M. Munsterkotter, S. Rudd, and B. Weil. Mips: a database for genomes and protein sequences. Nucleic Acids Res, 30:31-34, 2002.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 31-34
-
-
Mewes, H.W.1
Frishman, D.2
Guldener, U.3
Mannhaupt, G.4
Mayer, K.5
Mokrejs, M.6
Morgenstern, B.7
Munsterkotter, M.8
Rudd, S.9
Weil, B.10
-
18
-
-
0034700087
-
A computationally directed screen identifying interacting coiled coils from saccharomyces cerevisiae
-
J. R. Newman, E. Wolf, and P. S. Kim. A computationally directed screen identifying interacting coiled coils from saccharomyces cerevisiae. Proc Natl Acad Sci USA, 97:13203-13208, 2000.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 13203-13208
-
-
Newman, J.R.1
Wolf, E.2
Kim, P.S.3
-
19
-
-
0004161838
-
-
Cambridge University Press, New York
-
W. H. Press, S. A. Teukosky, W. T. Vetterling, and B. P. Flannery. Numerical Recipe in C: The Art of Scientific Computing. Cambridge University Press, New York, 1992.
-
(1992)
Numerical Recipe in C: The Art of Scientific Computing
-
-
Press, W.H.1
Teukosky, S.A.2
Vetterling, W.T.3
Flannery, B.P.4
-
20
-
-
0242268461
-
Predicting protein functions from redundancies in large-scale protein interaction networks
-
M. P. Samanta and S. Liang. Predicting protein functions from redundancies in large-scale protein interaction networks. Proc Natl Acad Sci U S A, 100:12579-12583, 2003.
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 12579-12583
-
-
Samanta, M.P.1
Liang, S.2
-
21
-
-
0033669189
-
A network of protein-protein interactions in yeas
-
B. Schwikowski, P. Uetz, and S. Fields. A network of protein-protein interactions in yeas. Nat Biotechnol, 18:1257-1261, 2000.
-
(2000)
Nat Biotechnol
, vol.18
, pp. 1257-1261
-
-
Schwikowski, B.1
Uetz, P.2
Fields, S.3
-
22
-
-
0034565041
-
Click: A clustering algorithm with applications to gene expression analysis
-
R. Sharan and R. Shamir. Click: a clustering algorithm with applications to gene expression analysis. In Proc Int Conf Intetl Syst Mot Biot., pages 307-316, 2000.
-
(2000)
Proc Int Conf Intetl Syst Mot Biot.
, pp. 307-316
-
-
Sharan, R.1
Shamir, R.2
-
23
-
-
0142059836
-
Protein complexes and functional modules in molecular networks
-
V. Spirin and L. A. Mirny. 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
-
24
-
-
0037059461
-
A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules
-
A. H. Tong, B. Drees, G. Nardelli, G. D. Bader, B. Brannetti, L. Castagnoli, M. Evangelista, S. Ferracuti, B. Nelson, S. Paoluzi, M. Quondam, A. Zucconi, C. W. Hogue, S. Fields, C. Boone, and G. Cesareni. A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules. Science, 295:321-324, 2002.
-
(2002)
Science
, vol.295
, pp. 321-324
-
-
Tong, A.H.1
Drees, B.2
Nardelli, G.3
Bader, G.D.4
Brannetti, B.5
Castagnoli, L.6
Evangelista, M.7
Ferracuti, S.8
Nelson, B.9
Paoluzi, S.10
Quondam, M.11
Zucconi, A.12
Hogue, C.W.13
Fields, S.14
Boone, C.15
Cesareni, G.16
-
25
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in saccharomyces cerevisiae
-
P. Uetz, L. Giot, G. Cagney, T. A. Mansfield, R. S. Judson, J. R. Knight, D. Lockshon, V. Narayan, M. Srinivasan, P. Pochart, A. Qureshi-Emili, Y. Li, B. Godwin, D. Conover, T. Kalbfleisch, G. Vijayadamodar, M. Yang, M. Johnston, S. Fields, and J. M. Rothberg. 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
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..
-
26
-
-
0036088133
-
Dip, the database of interacting proteins: A research tool for studying cellular networks of protein interactions
-
I. Xenarios, L. Salwinski, X. J. Duan, P. Higney, S. M. Kim, and D. Eisenberg. Dip, the database of interacting proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids Res, 30:303-305, 2002.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 303-305
-
-
Xenarios, I.1
Salwinski, L.2
Duan, X.J.3
Higney, P.4
Kim, S.M.5
Eisenberg, D.6
-
27
-
-
1842580761
-
Functional and topological characterization of protein interaction networks
-
S. H. Yook, Z. N. Oltvai, and B. A. L. Functional and topological characterization of protein interaction networks. Proteomics, 4:928-942, 2004.
-
(2004)
Proteomics
, vol.4
, pp. 928-942
-
-
Yook, S.H.1
Oltvai, Z.N.2
L., B.A.3
|