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Volumn 5, Issue 6, 2010, Pages 1148-1159

Gene function analysis in complex data sets using ermineJ

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; ARTICLE; BIOLOGY; COMPUTER INTERFACE; COMPUTER PROGRAM; DNA MICROARRAY; GENE EXPRESSION PROFILING; GENETIC DATABASE; GENOMICS; HUMAN; INFORMATION PROCESSING; METHODOLOGY; STATISTICS;

EID: 77956712508     PISSN: 17542189     EISSN: 17502799     Source Type: Journal    
DOI: 10.1038/nprot.2010.78     Document Type: Article
Times cited : (90)

References (23)
  • 1
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat
    • Ashburner, M. et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 25, 25-29 (2000).
    • (2000) Genet , vol.25 , pp. 25-29
    • Ashburner, M.1
  • 2
    • 23044478689 scopus 로고    scopus 로고
    • High-Throughput GoMiner, an ‘industrial-strength’ integrative Gene Ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID)
    • Zeeberg, B.R. et al. High-Throughput GoMiner, an ‘industrial-strength’ integrative Gene Ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID). BMC Bioinform. 6, 168 (2005).
    • (2005) BMC Bioinform , vol.6 , pp. 168
    • Zeeberg, B.R.1
  • 3
    • 20444365683 scopus 로고    scopus 로고
    • GOToolBox: Functional analysis of gene datasets based on Gene Ontology
    • Martin, D. et al. GOToolBox: functional analysis of gene datasets based on Gene Ontology. Genome Biol. 5, R101 (2004).
    • (2004) Genome Biol , vol.5 , pp. R101
    • Martin, D.1
  • 4
    • 1542399989 scopus 로고    scopus 로고
    • FatiGO: A web tool for finding significant associations of Gene Ontology terms with groups of genes
    • Al-Shahrour, F., Diaz-Uriarte, R., Dopazo, J., FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes. Bioinformatics 20, 578-580 (2004).
    • (2004) Bioinformatics , vol.20 , pp. 578-580
    • Al-Shahrour, F.1    Diaz-Uriarte, R.2    Dopazo, J.3
  • 5
    • 25444469954 scopus 로고    scopus 로고
    • GObar: A Gene Ontology based analysis and visualization tool for gene sets
    • Lee, J.S., Katari, G., Sachidanandam, R., GObar: a Gene Ontology based analysis and visualization tool for gene sets. BMC Bioinform. 6, 189 (2005).
    • (2005) BMC Bioinform , vol.6 , pp. 189
    • Lee, J.S.1    Katari, G.2    Sachidanandam, R.3
  • 6
    • 61449172037 scopus 로고    scopus 로고
    • Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat
    • Huang da, W., Sherman, B.T., Lempicki, R.A., Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat. Protoc. 4, 44-57 (2009).
    • (2009) Protoc , vol.4 , pp. 44-57
    • Huang Da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 7
    • 27944474776 scopus 로고    scopus 로고
    • ErmineJ: Tool for functional analysis of gene expression data sets
    • Lee, H.K., Braynen, W., Keshav, K., Pavlidis, P., ErmineJ: tool for functional analysis of gene expression data sets. BMC Bioinform. 6, 269 (2005).
    • (2005) BMC Bioinform , vol.6 , pp. 269
    • Lee, H.K.1    Braynen, W.2    Keshav, K.3    Pavlidis, P.4
  • 8
    • 33748690756 scopus 로고    scopus 로고
    • ADGO: Analysis of differentially expressed gene sets using composite GO annotation
    • Nam, D. et al. ADGO: analysis of differentially expressed gene sets using composite GO annotation. Bioinformatics 22, 2249-2253 (2006).
    • (2006) Bioinformatics , vol.22 , pp. 2249-2253
    • Nam, D.1
  • 10
    • 24144501270 scopus 로고    scopus 로고
    • GoCluster integrates statistical analysis and functional interpretation of microarray expression data
    • Wrobel, G., Chalmel, F., Primig, M. GoCluster integrates statistical analysis and functional interpretation of microarray expression data. Bioinformatics 21, 3575-3577 (2005).
    • (2005) Bioinformatics , vol.21 , pp. 3575-3577
    • Wrobel, G.1    Chalmel, F.2    Primig, M.3
  • 11
    • 2942550697 scopus 로고    scopus 로고
    • GOTree Machine (GOTM): A web-based platform for interpreting sets of interesting genes using Gene Ontology hierarchies
    • Zhang, B., Schmoyer, D., Kirov, S., Snoddy, J., GOTree Machine (GOTM): a web-based platform for interpreting sets of interesting genes using Gene Ontology hierarchies. BMC Bioinform. 5, 16 (2004).
    • (2004) BMC Bioinform , vol.5 , pp. 16
    • Zhang, B.1    Schmoyer, D.2    Kirov, S.3    Snoddy, J.4
  • 12
    • 34547840192 scopus 로고    scopus 로고
    • GAzer: Gene set analyzer
    • Kim, S.B. et al. GAzer: gene set analyzer. Bioinformatics 23, 1697-1699 (2007).
    • (2007) Bioinformatics , vol.23 , pp. 1697-1699
    • Kim, S.B.1
  • 14
    • 13244279520 scopus 로고    scopus 로고
    • Comparing functional annotation analyses with Catmap
    • Breslin, T., Eden, P., Krogh, M., Comparing functional annotation analyses with Catmap. BMC Bioinform. 5, 193 (2004).
    • (2004) BMC Bioinform , vol.5 , pp. 193
    • Breslin, T.1    Eden, P.2    Krogh, M.3
  • 15
    • 58149178561 scopus 로고    scopus 로고
    • AutDB: A gene reference resource for autism research
    • Basu, S.N., Kollu, R., Banerjee-Basu, S., AutDB: a gene reference resource for autism research. Nucleic Acids Res. 37, D832-836 (2009).
    • (2009) Nucleic Acids Res , vol.37 , pp. W363-W367
    • Basu, S.N.1    Kollu, R.2    Banerjee-Basu, S.3
  • 16
    • 0035998736 scopus 로고    scopus 로고
    • Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders
    • Hamosh, A. et al. Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res.30, 52-55 (2002).
    • (2002) Nucleic Acids Res , vol.30 , pp. 52-55
    • Hamosh, A.1
  • 17
    • 69449086702 scopus 로고    scopus 로고
    • Comparative analysis of gene regulation by the transcription factor PPARαbetween mouse and human
    • Rakhshandehroo, M., Hooiveld, G., Müller, M., Kersten, S., Comparative analysis of gene regulation by the transcription factor PPARαbetween mouse and human. PLoS ONE 4, e6796 (2009).
    • (2009) Plos ONE , vol.e6796 , pp. 4
    • Rakhshandehroo, M.1    Hooiveld, G.2    Müller, M.3    Kersten, S.4
  • 18
    • 66349094851 scopus 로고    scopus 로고
    • Gene expression profile of bladder tissue of patients with ulcerative interstitial cystitis
    • Gamper, M. et al. Gene expression profile of bladder tissue of patients with ulcerative interstitial cystitis. BMC Genomics 10, 199 (2009).
    • (2009) BMC Genomics , vol.10 , pp. 199
    • Gamper, M.1
  • 19
    • 45449091369 scopus 로고    scopus 로고
    • Shared gene expression alterations in schizophrenia and bipolar disorder. Biol
    • Shao, L., Vawter, M.P. Shared gene expression alterations in schizophrenia and bipolar disorder. Biol. Psychiatry 64, 89-97 (2008).
    • (2008) Psychiatry , vol.64 , pp. 89-97
    • Shao, L.1    Vawter, M.P.2
  • 20
    • 33750934403 scopus 로고    scopus 로고
    • Akt1 deficiency affects neuronal morphology and predisposes to abnormalities in prefrontal cortex functioning
    • Lai, W.S. et al. Akt1 deficiency affects neuronal morphology and predisposes to abnormalities in prefrontal cortex functioning. Proc. Natl Acad. Sci. USA 103, 16906-16911 (2006).
    • (2006) Proc. Natl Acad. Sci. USA , vol.103 , pp. 16906-16911
    • Lai, W.S.1
  • 21
    • 68749087317 scopus 로고    scopus 로고
    • Global brain gene expression analysis links glutamatergic and GABAergic alterations to suicide and major depression
    • Sequeira, A. et al. Global brain gene expression analysis links glutamatergic and GABAergic alterations to suicide and major depression. PLoS ONE 4, e6585 (2009).
    • (2009) Plos ONE , vol.e6585 , pp. 4
    • Sequeira, A.1
  • 22
    • 56049110230 scopus 로고    scopus 로고
    • Identification of Arx transcriptional targets in the developing basal forebrain. Hum. Mol
    • Fulp, C.T. et al. Identification of Arx transcriptional targets in the developing basal forebrain. Hum. Mol. Genet. 17, 3740-3760 (2008).
    • (2008) Genet , vol.17 , pp. 3740-3760
    • Fulp, C.T.1
  • 23
    • 77953916879 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. Roy. Stat. Soc. B57, 12 (1995).
    • (1995) J. Roy. Stat. Soc , vol.B57 , pp. 12
    • Benjamini, Y.1    Hochberg, Y.2


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