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Volumn 10, Issue 3, 2009, Pages 289-294

Potential bias in GO::TermFinder

Author keywords

Bias; Enrichment; False discovery rate; Gene ontology; GO::Termfinder

Indexed keywords

ALGORITHM; ARTICLE; BIOINFORMATICS; CALCULATION; COMPUTER PROGRAM; CONTROLLED STUDY; GENE IDENTIFICATION; INTERMETHOD COMPARISON; RANDOM SAMPLE; SAMPLING ERROR; STATISTICAL SIGNIFICANCE; SYSTEMS BIOLOGY;

EID: 65549163570     PISSN: 14675463     EISSN: 14774054     Source Type: Journal    
DOI: 10.1093/bib/bbn054     Document Type: Article
Times cited : (9)

References (16)
  • 1
    • 0038175144 scopus 로고    scopus 로고
    • GoMiner: A resource for biological interpretation of genomic and proteomic data
    • Zeeberg BR, Feng W, Wang G, et al. GoMiner: A resource for biological interpretation of genomic and proteomic data. Genome Biol 2003;4:R28.
    • (2003) Genome Biol , vol.4
    • Zeeberg, B.R.1    Feng, W.2    Wang, G.3
  • 2
    • 0035942271 scopus 로고    scopus 로고
    • Significance analysis of microarrays applied to the ionizing radiation response
    • Tusher VG, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001;98:5116-21.
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 5116-5121
    • Tusher, V.G.1    Tibshirani, R.2    Chu, G.3
  • 3
    • 0001677717 scopus 로고
    • Controlling the False discovery rate - a practical and powerful approach to multiple testing
    • Benjamini Y, Hochberg Y. Controlling the False discovery rate - a practical and powerful approach to multiple testing. J R Statist Soc B 1995;57:289-300.
    • (1995) J R Statist Soc B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 4
    • 48249109894 scopus 로고    scopus 로고
    • On correcting the overestimation of the permutation based False discovery rate estimator
    • doi: 10.1093/bioinformatics/btn310
    • Jiao S, Zhang S. On correcting the overestimation of the permutation based False discovery rate estimator. Bioinformatics 2008; doi: 10.1093/bioinformatics/btn310.
    • (2008) Bioinformatics
    • Jiao, S.1    Zhang, S.2
  • 5
    • 28444438861 scopus 로고    scopus 로고
    • A note on using permutation-based False discovery rate estimates to compare different analysis methods for microarray data
    • Xie Y, Pan W, Khodursky AB. A note on using permutation-based False discovery rate estimates to compare different analysis methods for microarray data. Bioinformatics 2005;21:4280-8.
    • (2005) Bioinformatics , vol.21 , pp. 4280-4288
    • Xie, Y.1    Pan, W.2    Khodursky, A.B.3
  • 6
    • 0034069495 scopus 로고    scopus 로고
    • Gene Ontology: Tool for the unification of biology
    • The Gene Ontology Consortium
    • The Gene Ontology Consortium. Gene Ontology: Tool for the unification of biology. Nat Genet 2000;25:25-9.
    • (2000) Nat Genet , vol.25 , pp. 25-29
  • 7
    • 12344269924 scopus 로고    scopus 로고
    • GO::TermFinder - open source software for accessing gene ontology information and finding significantly enriched gene ontology terms associated with a list of genes
    • Boyle EI, Weng SA, Gollub J, et al. GO::TermFinder - open source software for accessing gene ontology information and finding significantly enriched gene ontology terms associated with a list of genes. Bioinformatics 2004;20: 3710-5.
    • (2004) Bioinformatics , vol.20 , pp. 3710-3715
    • Boyle, E.I.1    Weng, S.A.2    Gollub, J.3
  • 8
    • 49549122021 scopus 로고    scopus 로고
    • SGD project, 18 July, date last accessed
    • SGD project. Saccharomyces Genome Database. http://www.yeastgenome.org/ (18 July 2008, date last accessed).
    • (2008) Saccharomyces Genome Database
  • 9
    • 65549118736 scopus 로고    scopus 로고
    • Gene Ontology Term Finder. http://db.yeastgenome.org/cgi-bin/GO/ goTermFinder.pl (18 July 2008, date last accessed).
    • Gene Ontology Term Finder. http://db.yeastgenome.org/cgi-bin/GO/ goTermFinder.pl (18 July 2008, date last accessed).
  • 10
    • 65549114999 scopus 로고    scopus 로고
    • CGD Gene Ontology Term Finder. http://www.candidagenome.org/cgi-bin/GO/ goTermFinder (18 July 2008, date last accessed).
    • CGD Gene Ontology Term Finder. http://www.candidagenome.org/cgi-bin/GO/ goTermFinder (18 July 2008, date last accessed).
  • 11
    • 65549097648 scopus 로고    scopus 로고
    • MGI Gene Ontology Term Finder. http://www.informatics.jax.org/gotools/ MGI_Term_Finder.html (18 July 2008, date last accessed).
    • MGI Gene Ontology Term Finder. http://www.informatics.jax.org/gotools/ MGI_Term_Finder.html (18 July 2008, date last accessed).
  • 12
    • 65549153148 scopus 로고    scopus 로고
    • Generic Gene Ontology Term Finder. http://go.princeton.edu/cgi-bin/ GOTermFinder (18 July 2008, date last accessed).
    • Generic Gene Ontology Term Finder. http://go.princeton.edu/cgi-bin/ GOTermFinder (18 July 2008, date last accessed).
  • 13
    • 33846036710 scopus 로고    scopus 로고
    • The stanford microarray database: Implementation of new analysis tools and open source release of software
    • Demeter J, Beauheim C, Gollub J, et al. The stanford microarray database: Implementation of new analysis tools and open source release of software. Nucleic Acids Res 2007; 35:D766-70.
    • (2007) Nucleic Acids Res , vol.35
    • Demeter, J.1    Beauheim, C.2    Gollub, J.3
  • 14
    • 65549161391 scopus 로고    scopus 로고
    • GO Downloads. http://www.geneontology.org/GO.downloads.shtml (18 July 2008, date last accessed).
    • GO Downloads. http://www.geneontology.org/GO.downloads.shtml (18 July 2008, date last accessed).


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.