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Volumn 25, Issue 9, 2009, Pages 1173-1177

The use of gene ontology evidence codes in preventing classifier assessment bias

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ANALYTICAL ERROR; ARTICLE; BIOINFORMATICS; CAENORHABDITIS ELEGANS; CLASSIFIER; CONTROLLED STUDY; DROSOPHILA MELANOGASTER; INFORMATION PROCESSING; MOLECULAR GENETICS; NONHUMAN; PREDICTION; PRIORITY JOURNAL; PROTEIN FUNCTION; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES POMBE; STATISTICAL ANALYSIS;

EID: 65449147869     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btp122     Document Type: Article
Times cited : (45)

References (26)
  • 1
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • Altschul,S. 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.1
  • 2
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul,S. et al. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.1
  • 3
    • 0034887203 scopus 로고    scopus 로고
    • Creating the gene ontology resource: Design and implementation
    • Ashburner,M. et al. (2001) Creating the gene ontology resource: design and implementation. Genome Res., 11, 1425-1433.
    • (2001) Genome Res , vol.11 , pp. 1425-1433
    • Ashburner, M.1
  • 4
    • 24744435534 scopus 로고    scopus 로고
    • Kernel methods for predicting protein-protein interactions
    • Ben-Hur,A. and Noble,W. (2005) Kernel methods for predicting protein-protein interactions. Bioinformatics, 21 (Suppl. 1), i38-i46.
    • (2005) Bioinformatics , vol.21 , Issue.SUPPL. 1
    • Ben-Hur, A.1    Noble, W.2
  • 5
    • 0030271920 scopus 로고    scopus 로고
    • Go hunting in sequence databases but watch out for the traps
    • Bork,P. and Bairoch,A. (1996) Go hunting in sequence databases but watch out for the traps. Trends Genet., 12, 425-427.
    • (1996) Trends Genet , vol.12 , pp. 425-427
    • Bork, P.1    Bairoch, A.2
  • 6
    • 0033119399 scopus 로고    scopus 로고
    • Errors in genome annotation
    • Brenner,S. (1999) Errors in genome annotation. Trends Genet., 15, 132-133.
    • (1999) Trends Genet , vol.15 , pp. 132-133
    • Brenner, S.1
  • 7
    • 39149103734 scopus 로고    scopus 로고
    • Gene Ontology annotation quality analysis in model eukaryotes
    • Buza,T. et al. (2008) Gene Ontology annotation quality analysis in model eukaryotes. Nucleic Acids Res, 36, e12.
    • (2008) Nucleic Acids Res , vol.36
    • Buza, T.1
  • 9
    • 12244283680 scopus 로고    scopus 로고
    • Modeling the percolation of annotation errors in a database of protein sequences
    • Gilks,W. et al. (2002) Modeling the percolation of annotation errors in a database of protein sequences. Bioinformatics, 18 1641-1649.
    • (2002) Bioinformatics , vol.18 , pp. 1641-1649
    • Gilks, W.1
  • 10
    • 65449182127 scopus 로고    scopus 로고
    • GO Consortium , Available at, last accessed date May, 2008
    • GO Consortium (2008) Guide to GO Evidence Codes. Available at http://www.geneontology.org/GO.evidence.shtml (last accessed date May, 2008).
    • (2008) Guide to GO Evidence Codes
  • 11
    • 34047166860 scopus 로고    scopus 로고
    • Design and analysis of the NIPS2003 challenge
    • Guyon,I. et al, eds, Springer, Berlin Heidelberg, pp
    • Guyon,I. et al. (2006) Design and analysis of the NIPS2003 challenge. In Guyon,I. et al. (eds) Feature extraction, foundations and applications. Springer, Berlin Heidelberg, pp.237-263.
    • (2006) Feature extraction, foundations and applications , pp. 237-263
    • Guyon, I.1
  • 12
    • 34250790725 scopus 로고    scopus 로고
    • Estimating the annotation error rate of curated GO database sequence annotations
    • Jones,C. 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.1
  • 13
    • 0031797096 scopus 로고    scopus 로고
    • What we do not know about sequence analysis and sequence databases
    • Karp,P. (1998) What we do not know about sequence analysis and sequence databases. Bioinformatics, 14, 753-754.
    • (1998) Bioinformatics , vol.14 , pp. 753-754
    • Karp, P.1
  • 14
    • 36448988254 scopus 로고    scopus 로고
    • Predicting protein function from sequence and structure
    • Lee,D. et al. (2007) Predicting protein function from sequence and structure. Nat. Rev. Mol. Cell Biol., 8, 995-1005.
    • (2007) Nat. Rev. Mol. Cell Biol , vol.8 , pp. 995-1005
    • Lee, D.1
  • 15
    • 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. Bioinformatics 19 (Suppl. 1), i197-i204.
    • (2003) Bioinformatics , vol.19 , Issue.SUPPL. 1
    • Letovsky, S.1    Kasif, S.2
  • 16
    • 0041845736 scopus 로고    scopus 로고
    • Predicting functional linkages from gene fusions with confidence
    • Marcotte,C. and Marcotte,E. (2002) Predicting functional linkages from gene fusions with confidence. Appl. Bioinform., 1, 93-100.
    • (2002) Appl. Bioinform , vol.1 , pp. 93-100
    • Marcotte, C.1    Marcotte, E.2
  • 17
    • 47549107689 scopus 로고    scopus 로고
    • GeneMANIA: A real-time multiple association network integration algorithm for predicting gene function
    • Mostafavi,S. et al. (2008) GeneMANIA: A real-time multiple association network integration algorithm for predicting gene function. Genome Biol., 9 (Suppl. 1), S4.
    • (2008) Genome Biol , vol.9 , Issue.SUPPL. 1
    • Mostafavi, S.1
  • 18
    • 11844292002 scopus 로고    scopus 로고
    • Inference of protein function from protein structure
    • Pal,D. and Eisenberg,D. (2005) Inference of protein function from protein structure. Structure, 13, 121-130.
    • (2005) Structure , vol.13 , pp. 121-130
    • Pal, D.1    Eisenberg, D.2
  • 19
    • 47549116997 scopus 로고    scopus 로고
    • A critical assessment of Mus musculus gene function prediction using integrated genomic evidence
    • Peña-Castillo,L. et al. (2008) A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome Biology, 9 (Suppl. 1), S2.
    • (2008) Genome Biology , vol.9 , Issue.SUPPL. 1
    • Peña-Castillo, L.1
  • 20
    • 34249855107 scopus 로고    scopus 로고
    • A structural alignment kernel for protein structures
    • Qiu,J. et al. (2007) A structural alignment kernel for protein structures. Bioinformatics, 23, 1090-1098.
    • (2007) Bioinformatics , vol.23 , pp. 1090-1098
    • Qiu, J.1
  • 21
    • 0142106373 scopus 로고    scopus 로고
    • How well is enzyme function conserved as a function of pairwise sequence identity?
    • Tian,W. and Skolnick,J. (2003) How well is enzyme function conserved as a function of pairwise sequence identity? J. Mol. Biol., 333 863-882.
    • (2003) J. Mol. Biol , vol.333 , pp. 863-882
    • Tian, W.1    Skolnick, J.2
  • 22
    • 47549104748 scopus 로고    scopus 로고
    • Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae gene function
    • Tian,W. et al. (2008) Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae gene function. Genome Biol., 9 (Suppl. 1), S7.
    • (2008) Genome Biol , vol.9 , Issue.SUPPL. 1
    • Tian, W.1
  • 23
    • 20444456581 scopus 로고    scopus 로고
    • Automatic annotation of protein function
    • Valencia, A. (2005) Automatic annotation of protein function. Curr. Opin. Struct. Biol., 15, 267-274.
    • (2005) Curr. Opin. Struct. Biol , vol.15 , pp. 267-274
    • Valencia, A.1
  • 24
    • 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
  • 26
    • 0036739126 scopus 로고    scopus 로고
    • UniBLAST: A system to filter, cluster, and display BLAST results and assign unique gene annotation
    • Zhou,Y. et al. (2002) UniBLAST: A system to filter, cluster, and display BLAST results and assign unique gene annotation. Bioinformatics, 18, 1268.
    • (2002) Bioinformatics , vol.18 , pp. 1268
    • Zhou, Y.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.