메뉴 건너뛰기




Volumn 24, Issue 15, 2008, Pages 1681-1687

Predicting protein function from domain content

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; DATA ANALYSIS SOFTWARE; FUNCTIONAL PROTEOMICS; PREDICTION; PRIORITY JOURNAL; PROBABILITY; PROTEIN DATABASE; PROTEIN FUNCTION; PROTEIN STRUCTURE; STATISTICAL MODEL; STRUCTURAL PROTEOMICS;

EID: 48249113702     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btn312     Document Type: Article
Times cited : (73)

References (29)
  • 1
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • Altschul,S.F. et al. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
    • (1990) J. Mol. Biol , vol.215 , pp. 403-410
    • Altschul, S.F.1
  • 2
    • 0034069495 scopus 로고    scopus 로고
    • Gene Ontology: Tool for the unification of biology. The Gene Ontology Consortium
    • Ashburner,M. et al. (2000) Gene Ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
    • (2000) Nat. Genet , vol.25 , pp. 25-29
    • Ashburner, M.1
  • 3
    • 33846059668 scopus 로고    scopus 로고
    • The generation of new protein functions by the combination of domains
    • Bashton,M. and Chothia,C. (2007) The generation of new protein functions by the combination of domains. Structure, 15, 85-99.
    • (2007) Structure , vol.15 , pp. 85-99
    • Bashton, M.1    Chothia, C.2
  • 4
    • 34547914091 scopus 로고    scopus 로고
    • Automated Improvement of Domain ANnotations using context analysis of domain arrangements (AIDAN)
    • Beaussart,F. et al. (2007) Automated Improvement of Domain ANnotations using context analysis of domain arrangements (AIDAN). Bioinformatics, 23, 1834-1836.
    • (2007) Bioinformatics , vol.23 , pp. 1834-1836
    • Beaussart, F.1
  • 5
    • 9144252016 scopus 로고    scopus 로고
    • The Gene Ontology Annotation (GOA) Database: Sharing knowledge in Uniprot with gene ontology
    • Camon,E. et al. (2004) The Gene Ontology Annotation (GOA) Database: Sharing knowledge in Uniprot with gene ontology. Nucleic Acids Res., 32, D262-D266.
    • (2004) Nucleic Acids Res , vol.32
    • Camon, E.1
  • 6
    • 0037446851 scopus 로고    scopus 로고
    • Enhanced protein domain discovery by using language modeling techniques from speech recognition
    • Coin,L. et al. (2003) Enhanced protein domain discovery by using language modeling techniques from speech recognition. PNAS, 100 4516-4520.
    • (2003) PNAS , vol.100 , pp. 4516-4520
    • Coin, L.1
  • 7
    • 33645310990 scopus 로고    scopus 로고
    • Protein molecular function prediction by Bayesian phylogenomics
    • Engethardt,B.E. et al. (2005) Protein molecular function prediction by Bayesian phylogenomics. PLoS Comput. Biol., 1, e45.
    • (2005) PLoS Comput. Biol , vol.1
    • Engethardt, B.E.1
  • 8
    • 33644876020 scopus 로고    scopus 로고
    • Pfam: Clans, web tools and services
    • Finn,R.D. et al. (2006) Pfam: Clans, web tools and services. Nucleic Acids Res., 34, D247-D251.
    • (2006) Nucleic Acids Res , vol.34
    • Finn, R.D.1
  • 9
    • 33748776559 scopus 로고    scopus 로고
    • Automated protein function prediction-the genomic challenge
    • Friedberg,I. (2006) Automated protein function prediction-the genomic challenge. Brief Bioinform., 7, 225-242.
    • (2006) Brief Bioinform , vol.7 , pp. 225-242
    • Friedberg, I.1
  • 10
    • 0031276011 scopus 로고    scopus 로고
    • Bayesian Network Classifiers
    • Friedman,N. et al. (1997) Bayesian Network Classifiers. Machine Learning, 29, 131-163.
    • (1997) Machine Learning , vol.29 , pp. 131-163
    • Friedman, N.1
  • 11
    • 33744471931 scopus 로고    scopus 로고
    • Enhanced automated function prediction using distantly related sequences and contextual association by PFP
    • Hawkins,T et al. (2006) Enhanced automated function prediction using distantly related sequences and contextual association by PFP. Protein Sci., 15, 1550-1556.
    • (2006) Protein Sci , vol.15 , pp. 1550-1556
    • Hawkins, T.1
  • 12
    • 48249107571 scopus 로고    scopus 로고
    • GOTrees: Predicting GO associations from protein domain composition using decision trees
    • Hayete,B. and Bienkowska,J.R. (2005) GOTrees: Predicting GO associations from protein domain composition using decision trees, Pacific Symp. Biocomp., 2005, 140-151.
    • (2005) Pacific Symp. Biocomp , pp. 140-151
    • Hayete, B.1    Bienkowska, J.R.2
  • 13
    • 29144490099 scopus 로고    scopus 로고
    • Automated methods of predicting the function of biological sequences using GO and BLAST
    • Jones,C.E. et al. (2005) Automated methods of predicting the function of biological sequences using GO and BLAST. BMC Bioinformatics, 6, 272.
    • (2005) BMC Bioinformatics , vol.6 , pp. 272
    • Jones, C.E.1
  • 14
    • 34250790725 scopus 로고    scopus 로고
    • Estimating the annotation error rate of curated GO database sequence annotations
    • Jones,C.E. et al. (2007) Estimating the annotation error rate of curated GO database sequence annotations. BMC Bioinformatics, 8 170.
    • (2007) BMC Bioinformatics , vol.8 , pp. 170
    • Jones, C.E.1
  • 15
    • 0034776419 scopus 로고    scopus 로고
    • Automatic rule generation for protein annotation with the C4.5 data mining algorithm applied on SWISS-PROT
    • Kretschmann,E. et al. (2001) Automatic rule generation for protein annotation with the C4.5 data mining algorithm applied on SWISS-PROT. Bioinformatics, 17, 920-926.
    • (2001) Bioinformatics , vol.17 , pp. 920-926
    • Kretschmann, E.1
  • 16
    • 33747870532 scopus 로고    scopus 로고
    • VIRGO: Computational prediction of gene functions
    • Massiouni,N. et al. (2006) VIRGO: Computational prediction of gene functions. Nucleic Acids Res., 34, W340-W344.
    • (2006) Nucleic Acids Res , vol.34
    • Massiouni, N.1
  • 17
    • 33846116032 scopus 로고    scopus 로고
    • New developments in the InterPro database
    • Mulder,N.J. et al. (2007) New developments in the InterPro database. Nucleic Acids Res., 35, D224-D228.
    • (2007) Nucleic Acids Res , vol.35
    • Mulder, N.J.1
  • 18
    • 0028961335 scopus 로고
    • SCOP: A structural classification of proteins database for the investigation of sequences and structures
    • Murzin,A.G. et al. (1995) SCOP: A structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol., 247, 536-540.
    • (1995) J. Mol. Biol , vol.247 , pp. 536-540
    • Murzin, A.G.1
  • 19
    • 55449131589 scopus 로고    scopus 로고
    • Probabilistic protein function prediction from heterogeneous genome-wide data
    • Nariai,N. et al. (2007) Probabilistic protein function prediction from heterogeneous genome-wide data. PLoS ONE, 2, e337.
    • (2007) PLoS ONE , vol.2
    • Nariai, N.1
  • 20
    • 0019443447 scopus 로고
    • The anatomy and taxonomy of protein structure
    • Richardson,J.S. (1981) The anatomy and taxonomy of protein structure. Advances Protein Chem., 34, 246.
    • (1981) Advances Protein Chem , vol.34 , pp. 246
    • Richardson, J.S.1
  • 21
    • 0036228634 scopus 로고    scopus 로고
    • Predicting gene ontology functions from ProDom and CDD protein domains
    • Schug, J. et al. (2002) Predicting gene ontology functions from ProDom and CDD protein domains. Genome Res., 12, 648-655.
    • (2002) Genome Res , vol.12 , pp. 648-655
    • Schug, J.1
  • 22
    • 34250333457 scopus 로고    scopus 로고
    • Domain architecture comparison for multidomain homology identification
    • Song,N. et al. (2007) Domain architecture comparison for multidomain homology identification. J. Comput. Biol., 14, 496-516.
    • (2007) J. Comput. Biol , vol.14 , pp. 496-516
    • Song, N.1
  • 23
    • 0031813130 scopus 로고    scopus 로고
    • Pfam: Multiple sequence alignments and HMM-profiles of protein domains
    • Sonnhammer,E.L. et al. (1998) Pfam: Multiple sequence alignments and HMM-profiles of protein domains. Nucleic Acids Res., 26, 320-322.
    • (1998) Nucleic Acids Res , vol.26 , pp. 320-322
    • Sonnhammer, E.L.1
  • 24
    • 34347388470 scopus 로고    scopus 로고
    • UniRef: Comprehensive and non-redundant UniProt reference clusters
    • Suzek, B.E. et al. (2007) UniRef: Comprehensive and non-redundant UniProt reference clusters. Bioinformatics, 23, 1282-1288.
    • (2007) Bioinformatics , vol.23 , pp. 1282-1288
    • Suzek, B.E.1
  • 25
    • 48249100235 scopus 로고    scopus 로고
    • Syed,U. and Yona,G. (2003) Using a mixture of probabilistic decision trees for direct prediction of protein function. In the proceedings of RECOMB, pp. 224-234.
    • Syed,U. and Yona,G. (2003) Using a mixture of probabilistic decision trees for direct prediction of protein function. In the proceedings of RECOMB, pp. 224-234.
  • 26
    • 33744499195 scopus 로고    scopus 로고
    • A categorization approach to automated ontological function annotation
    • Verspoor,K. et al. (2006) A categorization approach to automated ontological function annotation. Protein Sci., 15, 1544-1549.
    • (2006) Protein Sci , vol.15 , pp. 1544-1549
    • Verspoor, K.1
  • 27
    • 13244299124 scopus 로고    scopus 로고
    • Applying support vector machines for gene ontology based gene function prediction
    • Vinayagam,A. et al. (2004) Applying support vector machines for gene ontology based gene function prediction. BMC Bioinformatics, 5, 116.
    • (2004) BMC Bioinformatics , vol.5 , pp. 116
    • Vinayagam, A.1
  • 28
    • 33644873213 scopus 로고    scopus 로고
    • The Universal Protein Resource (UniProt): An expanding universe of protein information
    • Wu,C.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
  • 29
    • 33847607437 scopus 로고    scopus 로고
    • Globally predicting protein functions based on co-expressed protein-protein interaction networks and ontology taxonomy similarities
    • Zhu,M. et al. (2007) Globally predicting protein functions based on co-expressed protein-protein interaction networks and ontology taxonomy similarities. Gene, 391, 113-119.
    • (2007) Gene , vol.391 , pp. 113-119
    • Zhu, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.