메뉴 건너뛰기




Volumn 21, Issue 15, 2005, Pages 3217-3226

Functional annotation from predicted protein interaction networks

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; AMINO ACID SEQUENCE; ANALYTIC METHOD; ARTICLE; COMPUTER ANALYSIS; COMPUTER PROGRAM; CONTROLLED STUDY; EXPERIMENTATION; HUMAN; NONHUMAN; PERFORMANCE; PREDICTION; PRIORITY JOURNAL; PROTEIN DATA BANK; PROTEIN DATABASE; PROTEIN FUNCTION; PROTEIN INTERACTION; BIOLOGICAL MODEL; CHEMISTRY; CHROMOSOME MAP; COMPUTER SIMULATION; EVALUATION; GENE EXPRESSION REGULATION; METABOLISM; METHODOLOGY; PHYSIOLOGY; PROTEIN ANALYSIS; SEQUENCE ANALYSIS; SIGNAL TRANSDUCTION;

EID: 25144442693     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti514     Document Type: Article
Times cited : (46)

References (40)
  • 1
    • 0034491031 scopus 로고    scopus 로고
    • InterPro - An integrated documentation resource for protein families, domains and functional sites
    • Apweiler,R. [i#et al.#1i] (2000) InterPro - an integrated documentation resource for protein families, domains and functional sites. [i#Bioinformatics#1i], [b#16#1b], 1145-1150.
    • (2000) Bioinformatics , vol.16 , pp. 1145-1150
    • Apweiler, R.1
  • 2
    • 0033976454 scopus 로고    scopus 로고
    • GenBank
    • Benson,D.A. [i#et al.#1i] (2000) GenBank. [i#Nucleic Acids Res.#1i], [b#28#1b] 15-18.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 15-18
    • Benson, D.A.1
  • 3
    • 0033954256 scopus 로고    scopus 로고
    • The Protein Data Bank
    • Berman,H.M. [i#et al.#1i] (2000) The Protein Data Bank. [i#Nucleic Acids Res.#1i], [b#28#1b], 235-242.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 235-242
    • Berman, H.M.1
  • 4
    • 2942544498 scopus 로고    scopus 로고
    • Protein interaction networks from yeast to human
    • Bork,P. [i#et al.#1i] (2004) Protein interaction networks from yeast to human. [i#Curr. Opin. Struct. Biol.#1i], [b#14#1b], 292-299.
    • (2004) Curr. Opin. Struct. Biol. , vol.14 , pp. 292-299
    • Bork, P.1
  • 5
    • 0037264524 scopus 로고    scopus 로고
    • The GRID: The General Repository for Interaction Datasets
    • Breitkreutz,B.J. [i#et al.#1i] (2003) The GRID: The General Repository for Interaction Datasets. [i#Genome Biol.#1i], [b#4#1b], R23.
    • (2003) Genome Biol. , vol.4
    • Breitkreutz, B.J.1
  • 6
    • 1442329655 scopus 로고    scopus 로고
    • Functional classification of proteins for the prediction of cellular function from a protein protein interaction network
    • Brun,C. [i#et al.#1i] (2003) Functional classification of proteins for the prediction of cellular function from a protein protein interaction network. [i#Genome Biol.#1i], [b#5#1b], R6.
    • (2003) Genome Biol. , vol.5
    • Brun, C.1
  • 7
    • 0041358614 scopus 로고    scopus 로고
    • Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages
    • Date,S.V and Marcotte,E.M. (2003) Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages. [i#Nat. Biotechnol.#1i], [b#21#1b], 1055-1062.
    • (2003) Nat. Biotechnol. , vol.21 , pp. 1055-1062
    • Date, S.V.1    Marcotte, E.M.2
  • 8
    • 2342435295 scopus 로고    scopus 로고
    • Mapping Gene Ontology to proteins based on protein-protein interaction data
    • Deng,M. [i#et al.#1i] (2004) Mapping Gene Ontology to proteins based on protein-protein interaction data. [i#Bioinformatics#1i], [b#20#1b], 895-902.
    • (2004) Bioinformatics , vol.20 , pp. 895-902
    • Deng, M.1
  • 9
    • 2942549190 scopus 로고    scopus 로고
    • PreBIND and Textomy - Mining the biomedical literature for protein-protein interactions using a support vector machine
    • Donaldson,I. [i#et al.#1i] (2003) PreBIND and Textomy - mining the biomedical literature for protein-protein interactions using a support vector machine. [i#BMC Bioinformatics#1i], [b#4#1b], 11.
    • (2003) BMC Bioinformatics , vol.4 , pp. 11
    • Donaldson, I.1
  • 10
    • 0030963019 scopus 로고    scopus 로고
    • Toward a functional analysis of the yeast genome through exhaustive two-hybrid screens
    • Fromont-Racine,M. [i#et al.#1i] (1997) Toward a functional analysis of the yeast genome through exhaustive two-hybrid screens. [i#Nat. Genet.#1i] [b#16#1b], 277-282.
    • (1997) Nat. Genet. , vol.16 , pp. 277-282
    • Fromont-Racine, M.1
  • 11
    • 0345600247 scopus 로고    scopus 로고
    • A protein interaction map of Drosophila melanogaster
    • Giot,L. [i#et al.#1i] (2003) A protein interaction map of [i#Drosophila melanogaster. Science#1i], [b#302#1b], 1727-1736.
    • (2003) Science , vol.302 , pp. 1727-1736
    • Giot, L.1
  • 12
    • 0036435908 scopus 로고    scopus 로고
    • Co-evolutionary analysis reveals insights into protein-protein interactions
    • Goh,C.S. and Cohen,F.E. (2002) Co-evolutionary analysis reveals insights into protein-protein interactions. [i#J. Mol. Biol.#1i], [b#324#1b], 177-192.
    • (2002) J. Mol. Biol. , vol.324 , pp. 177-192
    • Goh, C.S.1    Cohen, F.E.2
  • 13
    • 0037050004 scopus 로고    scopus 로고
    • Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
    • Ho,Y. [i#et al.#1i] (2002) Systematic identification of protein complexes in [i#Saccharomyces cerevisiae#1i] by mass spectrometry. [i#Nature#1i], [b#415#1b], 180-183.
    • (2002) Nature , vol.415 , pp. 180-183
    • Ho, Y.1
  • 14
    • 0035799707 scopus 로고    scopus 로고
    • Lethality and centrality in protein networks
    • Jeong,H. [i#et al.#1i] (2001) Lethality and centrality in protein networks. [i#Nature#1i], [b#411#1b], 41-42.
    • (2001) Nature , vol.411 , pp. 41-42
    • Jeong, H.1
  • 15
    • 0037624063 scopus 로고    scopus 로고
    • Collection, mapping, and annotation of over 28 000 cDNA clones from japonica rice
    • Kikuchi,S. [i#et al.#1i] (2003) Collection, mapping, and annotation of over 28 000 cDNA clones from japonica rice. [i#Science#1i], [b#301#1b], 376-379.
    • (2003) Science , vol.301 , pp. 376-379
    • Kikuchi, S.1
  • 16
    • 1542271409 scopus 로고    scopus 로고
    • Predicting protein function from protein/protein interaction data: A probabilistic approach
    • Letovsky,S. and Kasif S. (2003) Predicting protein function from protein/ protein interaction data: A probabilistic approach. [i#Bioinformatics#1i] [b#19#1b](Suppl. 1), I197-I204.
    • (2003) Bioinformatics , vol.19 , Issue.SUPPL. 1
    • Letovsky, S.1    Kasif, S.2
  • 17
    • 9144264169 scopus 로고    scopus 로고
    • A map of the interactome network of the metazoan C. elegans
    • Li,S. [i#et al.#1i] (2004) A map of the interactome network of the metazoan [i#C. elegans. Science#1i], [b#303#1b], 540-543.
    • (2004) Science , vol.303 , pp. 540-543
    • Li, S.1
  • 18
    • 0033523854 scopus 로고    scopus 로고
    • A combined algorithm for genome-wide prediction of protein function
    • Marcotte,E.M. [i#et al.#1i] (1999) A combined algorithm for genome-wide prediction of protein function. [i#Nature#1i], [b#402#1b], 83-86.
    • (1999) Nature , vol.402 , pp. 83-86
    • Marcotte, E.M.1
  • 19
    • 0035211290 scopus 로고    scopus 로고
    • Identification of potential interaction networks using sequence-based searches for conserved protein protein interactions or 'interologs'
    • Matthews,L.R. [i#et al.#1i] (2001) Identification of potential interaction networks using sequence-based searches for conserved protein protein interactions or 'interologs'. [i#Genome Res.#1i], [b#11#1b], 2120-2126.
    • (2001) Genome Res. , vol.11 , pp. 2120-2126
    • Matthews, L.R.1
  • 20
    • 0043122992 scopus 로고    scopus 로고
    • Bioverse: Functional, structural and contextual annotation of proteins and proteomes
    • McDermott,J. and Samudrala,R. (2003) Bioverse: Functional, structural and contextual annotation of proteins and proteomes. [i#Nucleic Acids Res.#1i], [b#31#1b], 3736-3737.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3736-3737
    • McDermott, J.1    Samudrala, R.2
  • 21
    • 1642563965 scopus 로고    scopus 로고
    • Enhanced functional information from predicted protein networks
    • McDermott,J. and Samudrala,R. (2004) Enhanced functional information from predicted protein networks. [i#Trends Biotechnol.#1i], [b#22#1b], 60-62.
    • (2004) Trends Biotechnol. , vol.22 , pp. 60-62
    • McDermott, J.1    Samudrala, R.2
  • 22
    • 0030821675 scopus 로고    scopus 로고
    • Correlated mutations contain information about protein-protein interaction
    • Pazos,F. [i#et al.#1i] (1997) Correlated mutations contain information about protein-protein interaction. [i#J. Mol. Biol.#1i], [b#271#1b], 511-523.
    • (1997) J. Mol. Biol. , vol.271 , pp. 511-523
    • Pazos, F.1
  • 23
    • 0035843145 scopus 로고    scopus 로고
    • The protein-protein interaction map of Helicobacter pylori
    • Rain,J.C. [i#et al.#1i] (2001) The protein-protein interaction map of [i#Helicobacter pylori. Nature#1i], [b#409#1b], 211-215.
    • (2001) Nature , vol.409 , pp. 211-215
    • Rain, J.C.1
  • 24
    • 0037199968 scopus 로고    scopus 로고
    • Hierarchical organization of modularity in metabolic networks
    • Ravasz,E. [i#et al.#1i] (2002) Hierarchical organization of modularity in metabolic networks. [i#Science#1i], [b#297#1b], 1551-1555.
    • (2002) Science , vol.297 , pp. 1551-1555
    • Ravasz, E.1
  • 25
    • 0037417817 scopus 로고    scopus 로고
    • Modular organization of cellular networks
    • Rives,A.W. and Galitski,T. (2003) Modular organization of cellular networks. [i#Proc. Natl Acad. Sci. USA#1i], [b#100#1b], 1128-1133.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 1128-1133
    • Rives, A.W.1    Galitski, T.2
  • 26
    • 0242268461 scopus 로고    scopus 로고
    • Predicting protein functions from redundancies in large-scale protein interaction networks
    • Samanta,M.P. and Liang,S. (2003) Predicting protein functions from redundancies in large-scale protein interaction networks. [i#Proc. Natl Acad. Sci. USA#1i], [b#100#1b], 12579-12583.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 12579-12583
    • Samanta, M.P.1    Liang, S.2
  • 27
    • 0033669189 scopus 로고    scopus 로고
    • A network of protein-protein interactions in yeast
    • Schwikowski,B. [i#et al.#1i] (2000) A network of protein-protein interactions in yeast. [i#Nat. Biotechnol.#1i], [b#18#1b], 1257-1261.
    • (2000) Nat. Biotechnol. , vol.18 , pp. 1257-1261
    • Schwikowski, B.1
  • 28
    • 0142059836 scopus 로고    scopus 로고
    • Protein complexes and functional modules in molecular networks
    • Spirin,V and Mirny,L.A. (2003) Protein complexes and functional modules in molecular networks. [i#Proc. Natl Acad. Sci. USA#1i], [b#180#1b], 12123-12128.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.180 , pp. 12123-12128
    • Spirin, V.1    Mirny, L.A.2
  • 29
    • 0037249406 scopus 로고    scopus 로고
    • The FlyBase Consortium The FlyBase database of the Drosophila genome projects and community literature
    • The FlyBase Consortium (2003) The FlyBase database of the [i#Drosophila#1i] genome projects and community literature. [i#Nucleic Acids Res.#1i], [b#31#1b], 172-175.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 172-175
  • 30
    • 0034887203 scopus 로고    scopus 로고
    • The Gene Ontology Consortium Creating the gene ontology resource: Design and implementation
    • The Gene Ontology Consortium (2001) Creating the gene ontology resource: design and implementation. [i#Genome Res.#1i], [b#11#1b], 1425-1433.
    • (2001) Genome Res. , vol.11 , pp. 1425-1433
  • 31
    • 0034628508 scopus 로고    scopus 로고
    • A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
    • Uetz,P. [i#et al.#1i] (2000) A comprehensive analysis of protein-protein interactions in [i#Saccharomyces cerevisiae. Nature#1i], [b#403#1b], 623-627.
    • (2000) Nature , vol.403 , pp. 623-627
    • Uetz, P.1
  • 32
    • 0038699587 scopus 로고    scopus 로고
    • Global protein function prediction from protein-protein interaction networks
    • Vazquez,A. [i#et al.#1i] (2003) Global protein function prediction from protein-protein interaction networks. [i#Nat. Biotechnol.#1i], [b#21#1b], 697-700.
    • (2003) Nat. Biotechnol. , vol.21 , pp. 697-700
    • Vazquez, A.1
  • 33
    • 0037161731 scopus 로고    scopus 로고
    • Comparative assessment of large-scale data sets of protein-protein interactions
    • von Mering,C. [i#et al.#1i] (2002) Comparative assessment of large-scale data sets of protein-protein interactions. [i#Nature#1i], [b#417#1b], 399-403.
    • (2002) Nature , vol.417 , pp. 399-403
    • von Mering, C.1
  • 34
    • 0034614678 scopus 로고    scopus 로고
    • Protein interaction mapping in C.elegans using proteins involved in vulval development
    • Walhout,A.J. [i#et al.#1i] (2000) Protein interaction mapping in [i#C.elegans#1i] using proteins involved in vulval development. [i#Science#1i] [b#287#1b], 116-122.
    • (2000) Science , vol.287 , pp. 116-122
    • Walhout, A.J.1
  • 35
    • 0037249630 scopus 로고    scopus 로고
    • Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins
    • Weng,S. [i#et al.#1i] (2003) [i#Saccharomyces#1i] Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. [i#Nucleic Acids Res.#1i], [b#31#1b], 216-218.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 216-218
    • Weng, S.1
  • 36
    • 0141484611 scopus 로고    scopus 로고
    • Evolutionary conservation of motif constituents in the yeast protein interaction network
    • Wuchty,S. [i#et al.#1i] (2003) Evolutionary conservation of motif constituents in the yeast protein interaction network. [i#Nat. Genet.#1i] [b#35#1b], 176-179.
    • (2003) Nat. Genet. , vol.35 , pp. 176-179
    • Wuchty, S.1
  • 37
    • 0033971642 scopus 로고    scopus 로고
    • DIP: The database of interacting proteins
    • Xenarios,I. [i#et al.#1i] (2000) DIP: The database of interacting proteins. [i#Nucleic Acids Res.#1i], [b#28#1b], 289-291.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 289-291
    • Xenarios, I.1
  • 38
    • 3042569597 scopus 로고    scopus 로고
    • Annotation transfer between genomes: Protein-protein interologs and protein-DNA regulogs
    • Yu,H. [i#et al.#1i] (2004) Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs. [i#Genome Res.#1i], [b#14#1b], 1107-1118.
    • (2004) Genome Res. , vol.14 , pp. 1107-1118
    • Yu, H.1
  • 39
    • 20144366003 scopus 로고    scopus 로고
    • The Genomes of Oryza sativa: A history of duplications
    • Yu,J. [i#et al.#1i] (2005) The Genomes of [i#Oryza sativa#1i]: A history of duplications. [i#PLoS Biol.#1i], [b#3#1b], e38.
    • (2005) PLoS Biol. , vol.3
    • Yu, J.1
  • 40
    • 2442702846 scopus 로고    scopus 로고
    • Recognizing names in biomedical texts: A machine learning approach
    • Zhou,G. [i#et al.#1i] (2004) Recognizing names in biomedical texts: A machine learning approach. [i#Bioinformatics#1i], [b#20#1b], 1178-1190.
    • (2004) Bioinformatics , vol.20 , pp. 1178-1190
    • Zhou, G.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.