-
1
-
-
14844332708
-
Pathway information for systems biology
-
Cary, M.P., Bader, G.D. and Sander, C. (2005) Pathway information for systems biology. FEBS Lett., 579, 1815-1820.
-
(2005)
FEBS Lett.
, vol.579
, pp. 1815-1820
-
-
Cary, M.P.1
Bader, G.D.2
Sander, C.3
-
2
-
-
0035836765
-
A comprehensive two-hybrid analysis to explore the yeast protein interactome
-
Ito, T., Chiba, T., Ozawa, R., Yoshida, M., Hattori, M. and Sakaki, Y. (2001) A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl. Acad. Sci. USA, 98, 4569-4574.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 4569-4574
-
-
Ito, T.1
Chiba, T.2
Ozawa, R.3
Yoshida, M.4
Hattori, M.5
Sakaki, Y.6
-
3
-
-
0034659815
-
Proteomics to study genes and genomes
-
Pandey, A. and Mann, M. (2000) Proteomics to study genes and genomes. Nature, 405, 837-846.
-
(2000)
Nature
, vol.405
, pp. 837-846
-
-
Pandey, A.1
Mann, M.2
-
4
-
-
0037161731
-
Comparative assessment of large-scale data sets of protein-protein interactions
-
von Mering, C., Krause, R., Snel, B., Cornell, M., Oliver, S.G., Fields, S. and Bork, P. (2002) Comparative assessment of large-scale data sets of protein-protein interactions. Nature, 417, 399-403.
-
(2002)
Nature
, vol.417
, 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
-
5
-
-
0142052944
-
A Bayesian networks approach for predicting protein-protein interactions from genomic data
-
Jansen, R., Yu, H., Greenbaum, D., Kluger, Y., Krogan, N.J., Chung, S., Emili, A., Snyder, M., Greenblatt, J.F. et al. (2003) A Bayesian networks approach for predicting protein-protein interactions from genomic data. Science, 302, 449-453.
-
(2003)
Science
, vol.302
, pp. 449-453
-
-
Jansen, R.1
Yu, H.2
Greenbaum, D.3
Kluger, Y.4
Krogan, N.J.5
Chung, S.6
Emili, A.7
Snyder, M.8
Greenblatt, J.F.9
-
6
-
-
0038620469
-
Integrative approach for computationally inferring protein domain interactions
-
Ng, S.K., Zhang, Z. and Tan, S.H. (2003) Integrative approach for computationally inferring protein domain interactions. Bioinformatics, 19, 923-929.
-
(2003)
Bioinformatics
, vol.19
, pp. 923-929
-
-
Ng, S.K.1
Zhang, Z.2
Tan, S.H.3
-
7
-
-
34249730066
-
Evolutionary conservation of domain-domain interactions
-
Itzhaki, Z., Akiva, E., Altuvia, Y. and Margalit, H. (2006) Evolutionary conservation of domain-domain interactions. Genome Biol., 7, R125.
-
(2006)
Genome Biol.
, vol.7
-
-
Itzhaki, Z.1
Akiva, E.2
Altuvia, Y.3
Margalit, H.4
-
8
-
-
0036799752
-
Inferring domain-domain interactions from protein-protein interactions
-
Deng, M., Mehta, S., Sun, F. and Chen, T. (2002) Inferring domain-domain interactions from protein-protein interactions. Genome Res., 12, 1540-1548.
-
(2002)
Genome Res.
, vol.12
, pp. 1540-1548
-
-
Deng, M.1
Mehta, S.2
Sun, F.3
Chen, T.4
-
9
-
-
0033551248
-
Assigning protein functions by comparative genome analysis: Protein phylogenetic profiles
-
Pellegrini, M., Marcotte, E.M., Thompson, M.J., Eisenberg, D. and Yeates, T.O. (1999) Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc. Natl Acad. Sci. USA, 96, 4285-4288.
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 4285-4288
-
-
Pellegrini, M.1
Marcotte, E.M.2
Thompson, M.J.3
Eisenberg, D.4
Yeates, T.O.5
-
10
-
-
0037197902
-
Interrogating protein interaction networks through structural biology
-
Aloy, P. and Russell, R.B. (2002) Interrogating protein interaction networks through structural biology. Proc. Natl Acad. Sci. USA, 99, 5896-5901.
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 5896-5901
-
-
Aloy, P.1
Russell, R.B.2
-
11
-
-
0038817799
-
Multimeric threading-based prediction of protein-protein interactions on a genomic scale: Application to the Saccharomyces cerevisiae proteome
-
Lu, L., Arakaki, A.K., Lu, H. and Skolnick, J. (2003) Multimeric threading-based prediction of protein-protein interactions on a genomic scale: application to the Saccharomyces cerevisiae proteome. Genome Res., 13, 1146-1154.
-
(2003)
Genome Res.
, vol.13
, pp. 1146-1154
-
-
Lu, L.1
Arakaki, A.K.2
Lu, H.3
Skolnick, J.4
-
12
-
-
0035211290
-
Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs"
-
Matthews, L.R., Vaglio, P., Reboul, J., Ge, H., Davis, B.P., Garrels, J., Vincent, S. and Vidal, M. (2001) Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs". Genome Res., 11, 2120-2126.
-
(2001)
Genome Res.
, vol.11
, pp. 2120-2126
-
-
Matthews, L.R.1
Vaglio, P.2
Reboul, J.3
Ge, H.4
Davis, B.P.5
Garrels, J.6
Vincent, S.7
Vidal, M.8
-
13
-
-
30644463216
-
Cluster analysis of networks generated through homology: Automatic identification of important protein communities involved in cancer metastasis
-
Jonsson, P.F., Cavanna, T., Zicha, D. and Bates, P.A. (2006) Cluster analysis of networks generated through homology: automatic identification of important protein communities involved in cancer metastasis. BMC Bioinformatics, 7, 2.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 2
-
-
Jonsson, P.F.1
Cavanna, T.2
Zicha, D.3
Bates, P.A.4
-
14
-
-
12144290243
-
Structure-based assembly of protein complexes in yeast
-
Aloy, P., Bottcher, B., Ceulemans, H., Leutwein, C., Mellwig, C., Fischer, S., Gavin, A.C., Bork, P., Superti-Furga, G. et al. (2004) Structure-based assembly of protein complexes in yeast. Science, 303, 2026-2029.
-
(2004)
Science
, vol.303
, pp. 2026-2029
-
-
Aloy, P.1
Bottcher, B.2
Ceulemans, H.3
Leutwein, C.4
Mellwig, C.5
Fischer, S.6
Gavin, A.C.7
Bork, P.8
Superti-Furga, G.9
-
15
-
-
0037110589
-
MULTIPROSPECTOR: An algorithm for the prediction of protein-protein interactions by multimeric threading
-
Lu, L., Lu, H. and Skolnick, J. (2002) MULTIPROSPECTOR: an algorithm for the prediction of protein-protein interactions by multimeric threading. Proteins, 49, 350-364.
-
(2002)
Proteins
, vol.49
, pp. 350-364
-
-
Lu, L.1
Lu, H.2
Skolnick, J.3
-
16
-
-
34250212118
-
DAPID: A 3D-domain annotated protein-protein interaction database
-
Chen, Y.-C., Chen, H.-C. and Yang, J.-M. (2006) DAPID: a 3D-domain annotated protein-protein interaction database. Genome Informatics, 17, 206-215.
-
(2006)
Genome Informatics
, vol.17
, pp. 206-215
-
-
Chen, Y.-C.1
Chen, H.-C.2
Yang, J.-M.3
-
17
-
-
0037255072
-
The SWISS-PROT protein knowledge-base and its supplement TrEMBL in 2003
-
Boeckmann, B., Bairoch, A., Apweiler, R., Blatter, M.C., Estreicher, A., Gasteiger, E., Martin, M.J., Michoud, K., O'Donovan, C. et al. (2003) The SWISS-PROT protein knowledge-base and its supplement TrEMBL in 2003. Nucleic Acids Res., 31, 365-370.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.C.4
Estreicher, A.5
Gasteiger, E.6
Martin, M.J.7
Michoud, K.8
O'Donovan, C.9
-
18
-
-
0035066602
-
ASEdb: A database of alanine mutations and their effects on the free energy of binding in protein interactions
-
Thorn, K.S. and Bogan, A.A. (2001) ASEdb: a database of alanine mutations and their effects on the free energy of binding in protein interactions. Bioinformatics, 17, 284-285.
-
(2001)
Bioinformatics
, vol.17
, pp. 284-285
-
-
Thorn, K.S.1
Bogan, A.A.2
-
19
-
-
13444270892
-
The RCSB Protein Data Bank: A redesigned query system and relational database based on the mmCIF schema
-
Deshpande, N., Addess, K.J., Bluhm, W.F., Merino-Ott, J.C., Townsend-Merino, W., Zhang, Q., Knezevich, C., Xie, L., Chen, L. et al. (2005) The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema. Nucleic Acids Res., 33, D233-D237.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Deshpande, N.1
Addess, K.J.2
Bluhm, W.F.3
Merino-Ott, J.C.4
Townsend-Merino, W.5
Zhang, Q.6
Knezevich, C.7
Xie, L.8
Chen, L.9
-
20
-
-
0037229456
-
Analysing six types of protein-protein interfaces
-
Ofran, Y. and Rost, B. (2003) Analysing six types of protein-protein interfaces. J. Mol. Biol., 325, 377-387.
-
(2003)
J. Mol. Biol.
, vol.325
, pp. 377-387
-
-
Ofran, Y.1
Rost, B.2
-
21
-
-
0035970298
-
Mapping protein family interactions: Intramolecular and intermolecular protein family interaction repertoires in the PDB and yeast
-
Park, J., Lappe, M. and Teichmann, S.A. (2001) Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the PDB and yeast. J. Mol. Biol., 307, 929-938.
-
(2001)
J. Mol. Biol.
, vol.307
, pp. 929-938
-
-
Park, J.1
Lappe, M.2
Teichmann, S.A.3
-
22
-
-
0346494941
-
SCOP database in 2004: Refinements integrate structure and sequence family data
-
Andreeva, A., Howorth, D., Brenner, S.E., Hubbard, T.J., Chothia, C. and Murzin, A.G. (2004) SCOP database in 2004: refinements integrate structure and sequence family data. Nucleic Acids Res., 32, D226-D229.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Andreeva, A.1
Howorth, D.2
Brenner, S.E.3
Hubbard, T.J.4
Chothia, C.5
Murzin, A.G.6
-
23
-
-
33644873213
-
The Universal Protein Resource (UniProt): An expanding universe of protein information
-
Wu, C.H., Apweiler, R., Bairoch, A., Natale, D.A., Barker, W.C., Boeckmann, B., Ferro, S., Gasteiger, E., Huang, H. et al. (2006) The Universal Protein Resource (UniProt): an expanding universe of protein information. Nucleic Acids Res., 34, D187-D191.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Wu, C.H.1
Apweiler, R.2
Bairoch, A.3
Natale, D.A.4
Barker, W.C.5
Boeckmann, B.6
Ferro, S.7
Gasteiger, E.8
Huang, H.9
-
24
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff, S. and Henikoff, J.G. (1992) Amino acid substitution matrices from protein blocks. Proc. Natl Acad. Sci. USA, 89, 10915-10919.
-
(1992)
Proc. Natl Acad. Sci. USA
, vol.89
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.G.2
-
25
-
-
0035342450
-
Residue frequencies and pairing preferences at protein-protein interfaces
-
Glaser, F., Steinberg, D.M., Vakser, I.A. and Ben-Tal, N. (2001) Residue frequencies and pairing preferences at protein-protein interfaces. Proteins: Struct. Funct. Bioinformatics, 43, 89-102.
-
(2001)
Proteins: Struct. Funct. Bioinformatics
, vol.43
, pp. 89-102
-
-
Glaser, F.1
Steinberg, D.M.2
Vakser, I.A.3
Ben-Tal, N.4
-
26
-
-
0033766435
-
The structure of the central stalk in bovine F(1)-ATPase at 2.4 A resolution
-
Gibbons, C., Montgomery, M.G., Leslie, A.G. and Walker, J.E. (2000) The structure of the central stalk in bovine F(1)-ATPase at 2.4 A resolution. Nat. Struct. Biol., 7, 1055-1061.
-
(2000)
Nat. Struct. Biol.
, vol.7
, pp. 1055-1061
-
-
Gibbons, C.1
Montgomery, M.G.2
Leslie, A.G.3
Walker, J.E.4
-
27
-
-
0032951709
-
ATP synthase of yeast mitochondria. Isolation of subunit j and disruption of the ATP18 gene
-
Arnold, I., Pfeiffer, K., Neupert, W., Stuart, R.A. and Schagger, H. (1999) ATP synthase of yeast mitochondria. Isolation of subunit j and disruption of the ATP18 gene. J. Biol. Chem., 274, 36-40.
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 36-40
-
-
Arnold, I.1
Pfeiffer, K.2
Neupert, W.3
Stuart, R.A.4
Schagger, H.5
-
28
-
-
0032805413
-
The role of the amino-terminal beta-barrel domain of the alpha and beta subunits in the yeast F1-ATPase
-
Yao, B. and Mueller, D.M. (1999) The role of the amino-terminal beta-barrel domain of the alpha and beta subunits in the yeast F1-ATPase. J. Bioenerg. Biomembr., 31, 95-104.
-
(1999)
J. Bioenerg. Biomembr.
, vol.31
, pp. 95-104
-
-
Yao, B.1
Mueller, D.M.2
-
29
-
-
0025196280
-
Regulatory proteins of F1F0-ATPase: Role of ATPase inhibitor
-
Hashimoto, T., Yoshida, Y. and Tagawa, K. (1990) Regulatory proteins of F1F0-ATPase: role of ATPase inhibitor. J. Bioenerg. Biomembr., 22, 27-38.
-
(1990)
J. Bioenerg. Biomembr.
, vol.22
, pp. 27-38
-
-
Hashimoto, T.1
Yoshida, Y.2
Tagawa, K.3
-
30
-
-
0041819514
-
The structure of bovine F1-ATPase in complex with its regulatory protein IF1
-
Cabezon, E., Montgomery, M.G., Leslie, A.G. and Walker, J.E. (2003) The structure of bovine F1-ATPase in complex with its regulatory protein IF1. Nat. Struct. Biol., 10, 744-750.
-
(2003)
Nat. Struct. Biol.
, vol.10
, pp. 744-750
-
-
Cabezon, E.1
Montgomery, M.G.2
Leslie, A.G.3
Walker, J.E.4
-
31
-
-
0346801873
-
The Gene Ontology (GO) database and informatics resource
-
Harris, M.A., Clark, J., Ireland, A., Lomax, J., Ashburner, M., Foulger, R., Eilbeck, K., Lewis, S., Marshall, B. et al. (2004) The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res., 32, D258-D261.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Harris, M.A.1
Clark, J.2
Ireland, A.3
Lomax, J.4
Ashburner, M.5
Foulger, R.6
Eilbeck, K.7
Lewis, S.8
Marshall, B.9
-
32
-
-
0030831182
-
Genetic and physical maps of Saccharomyces cerevisiae
-
Cherry, J.M., Ball, C., Weng, S., Juvik, G., Schmidt, R., Adler, C., Dunn, B., Dwight, S., Riles, L. et al. (1997) Genetic and physical maps of Saccharomyces cerevisiae. Nature, 387, 67-73.
-
(1997)
Nature
, vol.387
, pp. 67-73
-
-
Cherry, J.M.1
Ball, C.2
Weng, S.3
Juvik, G.4
Schmidt, R.5
Adler, C.6
Dunn, B.7
Dwight, S.8
Riles, L.9
-
33
-
-
13844255392
-
Protein complexes: Structure prediction challenges for the 21st century
-
Aloy, P., Pichaud, M. and Russell, R.B. (2005) Protein complexes: structure prediction challenges for the 21st century. Curr. Opin. Struct. Biol., 15, 15-22.
-
(2005)
Curr. Opin. Struct. Biol.
, vol.15
, pp. 15-22
-
-
Aloy, P.1
Pichaud, M.2
Russell, R.B.3
|