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Volumn 22, Issue 2, 2010, Pages 210-221

TreeHugger: A new test for enrichment of gene ontology terms

Author keywords

Data analysis; Genomics; Microarray; Probability; Statistics

Indexed keywords


EID: 77952049609     PISSN: 10919856     EISSN: 15265528     Source Type: Journal    
DOI: 10.1287/ijoc.1090.0356     Document Type: Article
Times cited : (4)

References (23)
  • 1
    • 33745626459 scopus 로고    scopus 로고
    • Improved scoring of functional groups from gene expression data by decorrelating GO graph structure
    • Alexa, A., J. Rahnenführer, T. Lengauer. 2006. Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. Bioinformatics 22(13) 1600-1607.
    • (2006) Bioinformatics , vol.22 , Issue.13 , pp. 1600-1607
    • Alexa, A.1    Rahnenführer, J.2    Lengauer, T.3
  • 2
    • 1542399989 scopus 로고    scopus 로고
    • FatiGO: A Web tool for finding significant associations of Gene Ontology terms with groups of genes
    • Al-Shahrour, F., R. Díaz-Uriarte, J. Dopazo. 2004. FatiGO: A Web tool for finding significant associations of Gene Ontology terms with groups of genes. Bioinformatics 20(4) 578-580.
    • (2004) Bioinformatics , vol.20 , Issue.4 , pp. 578-580
    • Al-Shahrour, F.1    Díaz-Uriarte, R.2    Dopazo, J.3
  • 5
    • 18744389489 scopus 로고    scopus 로고
    • Significance analysis of functional categories in gene expression studies: A structured permutation approach
    • Barry, W. T., A. B. Nobel, F. A. Wright. 2005. Significance analysis of functional categories in gene expression studies: A structured permutation approach. Bioinformatics 21(9) 1943-1949.
    • (2005) Bioinformatics , vol.21 , Issue.9 , pp. 1943-1949
    • Barry, W.T.1    Nobel, A.B.2    Wright, F.A.3
  • 6
    • 3142665525 scopus 로고    scopus 로고
    • GOstat: Find statistically overrepresented Gene Ontologies within a group of genes
    • Beißbarth, T., T. P. Speed. 2004. GOstat: Find statistically overrepresented Gene Ontologies within a group of genes. Bioinformatics 20(9) 1464-1465.
    • (2004) Bioinformatics , vol.20 , Issue.9 , pp. 1464-1465
    • Beißbarth, T.1    Speed, T.P.2
  • 7
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini, Y., Y. Hochberg. 1995. Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. Roy. Statist. Soc. Ser. B 57(1) 289-300.
    • (1995) J. Roy. Statist. Soc. Ser. B , vol.57 , Issue.1 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 8
    • 16344373908 scopus 로고    scopus 로고
    • Identifying subtle interrelated changes in functional gene categories using continuous measures of gene expression
    • Ben-Shaul, Y., H. Bergman, H. Soreq. 2005. Identifying subtle interrelated changes in functional gene categories using continuous measures of gene expression. Bioinformatics 21(7) 1129-1137.
    • (2005) Bioinformatics , vol.21 , Issue.7 , pp. 1129-1137
    • Ben-Shaul, Y.1    Bergman, H.2    Soreq, H.3
  • 10
    • 13244279520 scopus 로고    scopus 로고
    • Comparing functional annotation analyses with Catmap
    • Breslin, T., P. Eden, M. Krogh. 2004. Comparing functional annotation analyses with Catmap. BMC Bioinformatics 5 193.
    • (2004) BMC Bioinformatics , vol.5 , pp. 193
    • Breslin, T.1    Eden, P.2    Krogh, M.3
  • 11
    • 33847205295 scopus 로고    scopus 로고
    • GENECODIS: A Web-based tool for finding significant concurrent annotations in gene lists
    • Carmona-Saez, P., M. Chagoyen, F. Tirado, J. M. Carazo, A. Pascual- Montano. 2007. GENECODIS: A Web-based tool for finding significant concurrent annotations in gene lists. Genome Biol. 8(1) R3.
    • (2007) Genome Biol. , vol.8 , Issue.1
    • Carmona-Saez, P.1    Chagoyen, M.2    Tirado, F.3    Carazo, J.M.4    Pascual-Montano, A.5
  • 12
    • 0038522873 scopus 로고    scopus 로고
    • GeneMerge-Post-genomic analysis, data mining, and hypothesis testing
    • Castillo-Davis, C. I., D. L. Hartl. 2003. GeneMerge-Post-genomic analysis, data mining, and hypothesis testing. Bioinformatics 19(7) 891-892.
    • (2003) Bioinformatics , vol.19 , Issue.7 , pp. 891-892
    • Castillo-Davis, C.I.1    Hartl, D.L.2
  • 13
    • 29144535372 scopus 로고    scopus 로고
    • Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data
    • Dai, M., P. Wang, A. D. Boyd, G. Kostov, B. Athey, E. G. Jones, W. E. Bunney et al. 2005. Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res. 33(20) e175.
    • (2005) Nucleic Acids Res. , vol.33 , Issue.20
    • Dai, M.1    Wang, P.2    Boyd, A.D.3    Kostov, G.4    Athey, B.5    Jones, E.G.6    Bunney, W.E.7
  • 14
    • 0036081355 scopus 로고    scopus 로고
    • Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
    • Edgar, R., M. Domrachev, A. E. Lash. 2002. Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 30(1) 207-210.
    • (2002) Nucleic Acids Res. , vol.30 , Issue.1 , pp. 207-210
    • Edgar, R.1    Domrachev, M.2    Lash, A.E.3
  • 16
    • 39149099505 scopus 로고    scopus 로고
    • Multiple testing on the directed acyclic graph of gene ontology
    • Goeman, J. J., U. Mansmann. 2008. Multiple testing on the directed acyclic graph of gene ontology. Bioinformatics 24(4) 537-544.
    • (2008) Bioinformatics , vol.24 , Issue.4 , pp. 537-544
    • Goeman, J.J.1    Mansmann, U.2
  • 17
    • 0345832338 scopus 로고    scopus 로고
    • A global test for groups of genes: Testing association with a clinical outcome
    • Goeman, J. J., S. A. van de Geer, F. de Kort, H. C. van Houwelingen. 2004. A global test for groups of genes: Testing association with a clinical outcome. Bioinformatics 20(1) 93-99.
    • (2004) Bioinformatics , vol.20 , Issue.1 , pp. 93-99
    • Goeman, J.J.1    Van De Geer, S.A.2    De Kort, F.3    Van Houwelingen, H.C.4
  • 18
    • 33745622100 scopus 로고    scopus 로고
    • An improved statistic for detecting over represented Gene Ontology annotations in gene sets
    • A. Apostolico, C. Guerra, S. Istrail, P. A. Pevzner, M. S. Waterman, eds. Springer, New York
    • Grossmann, S., S. Bauer, P. N. Robinson, M. Vingron. 2006. An improved statistic for detecting over represented Gene Ontology annotations in gene sets. A. Apostolico, C. Guerra, S. Istrail, P. A. Pevzner, M. S. Waterman, eds. Research in Computational Molecular Biology. Springer, New York, 85-98.
    • (2006) Research in Computational Molecular Biology , pp. 85-98
    • Grossmann, S.1    Bauer, S.2    Robinson, P.N.3    Vingron, M.4
  • 19
    • 33645772458 scopus 로고    scopus 로고
    • Strain-dependent pulmonary gene expression profiles of a cystic fibrosis mouse model
    • Haston, C. K., S. Cory, L. Lafontaine, G. Dorion, M. T. Hallett. 2006. Strain-dependent pulmonary gene expression profiles of a cystic fibrosis mouse model. Physiol. Genomics 25(2) 336-345.
    • (2006) Physiol. Genomics , vol.25 , Issue.2 , pp. 336-345
    • Haston, C.K.1    Cory, S.2    Lafontaine, L.3    Dorion, G.4    Hallett, M.T.5
  • 22
    • 33847324900 scopus 로고    scopus 로고
    • Extensions to gene set enrichment
    • Jiang, Z., R. Gentleman. 2007. Extensions to gene set enrichment. Bioinformatics 23(3) 306-313.
    • (2007) Bioinformatics , vol.23 , Issue.3 , pp. 306-313
    • Jiang, Z.1    Gentleman, R.2
  • 23
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • Kanehisa, M., S. Goto. 2000. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28(1) 27-30.
    • (2000) Nucleic Acids Res. , vol.28 , Issue.1 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2


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