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Volumn 40, Issue W1, 2012, Pages

Inferring the regulatory network behind a gene expression experiment

Author keywords

[No Author keywords available]

Indexed keywords

EARLY GROWTH RESPONSE FACTOR 1; GA BINDING PROTEIN; MICRORNA; MYC PROTEIN; PROTEIN NFYA; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR E2F1; TRANSCRIPTION FACTOR YY1; UNCLASSIFIED DRUG;

EID: 84864446871     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks573     Document Type: Article
Times cited : (8)

References (35)
  • 1
    • 41349096445 scopus 로고    scopus 로고
    • Gene regulation by transcription factors and micrornas
    • Hobert, O. (2008) Gene regulation by transcription factors and microRNAs. Science, 319, 1785-1786.
    • (2008) Science , vol.319 , pp. 1785-1786
    • Hobert, O.1
  • 2
    • 0034056133 scopus 로고    scopus 로고
    • Online mendelian inheritance in man (OMIM) as a knowledgebase for human developmental disorders
    • Boyadjiev, S.A. and Jabs, E.W. (2000) Online Mendelian Inheritance in Man (OMIM) as a knowledgebase for human developmental disorders. Clin Genet, 57, 253-266.
    • (2000) Clin Genet , vol.57 , pp. 253-266
    • Boyadjiev, S.A.1    Jabs, E.W.2
  • 3
    • 54849408182 scopus 로고    scopus 로고
    • An analysis of human microrna and disease associations
    • Lu, M., Zhang, Q., Deng, M., Miao, J., Guo, Y., Gao, W. and Cui, Q. (2008) An analysis of human microRNA and disease associations. PLoS ONE, 3, e3420.
    • (2008) PLoS ONE , vol.3
    • Lu, M.1    Zhang, Q.2    Deng, M.3    Miao, J.4    Guo, Y.5    Gao, W.6    Cui, Q.7
  • 4
    • 33144462258 scopus 로고    scopus 로고
    • Structural and functional properties of genes involved in human cancer
    • Furney, S.J., Higgins, D.G., Ouzounis, C.A. and Lopez-Bigas, N. (2006) Structural and functional properties of genes involved in human cancer. BMC Genomics, 7, 3.
    • (2006) BMC Genomics , vol.7 , pp. 3
    • Furney, S.J.1    Higgins, D.G.2    Ouzounis, C.A.3    Lopez-Bigas, N.4
  • 5
    • 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. and Dopazo, J. (2004) FatiGO: a web tool for finding significant associations of gene ontology terms with groups of genes. Bioinformatics, 20, 578-580.
    • (2004) Bioinformatics , vol.20 , pp. 578-580
    • Al-Shahrour, F.1    Diaz-Uriarte, R.2    Dopazo, J.3
  • 8
    • 0035733108 scopus 로고    scopus 로고
    • The control of false discovery rate in multiple testing under dependency
    • Benjamini, Y. and Yekutieli, D. (2001) The control of false discovery rate in multiple testing under dependency. Ann Statist, 29, 1165-1188.
    • (2001) Ann Statist , vol.29 , pp. 1165-1188
    • Benjamini, Y.1    Yekutieli, D.2
  • 11
    • 60149095444 scopus 로고    scopus 로고
    • Most mammalian mrnas are conserved targets of micrornas
    • Friedman, R.C., Farh, K.K., Burge, C.B. and Bartel, D.P. (2009) Most mammalian mrnas are conserved targets of micrornas. Genome Res, 19, 92-105.
    • (2009) Genome Res , vol.19 , pp. 92-105
    • Friedman, R.C.1    Farh, K.K.2    Burge, C.B.3    Bartel, D.P.4
  • 12
    • 58149186499 scopus 로고    scopus 로고
    • Mirecords: An integrated resource for microrna-target interactions
    • Xiao, F., Zuo, Z., Cai, G., Kang, S., Gao, X. and Li, T. (2009) miRecords: an integrated resource for microRNA-target interactions. Nucleic Acids Res, 37, D105-D110.
    • (2009) Nucleic Acids Res , vol.37
    • Xiao, F.1    Zuo, Z.2    Cai, G.3    Kang, S.4    Gao, X.5    Li, T.6
  • 14
    • 84855955378 scopus 로고    scopus 로고
    • Phenomir: Micrornas in human diseases and biological processes
    • Ruepp, A., Kowarsch, A. and Theis, F. (2012) PhenomiR: microRNAs in human diseases and biological processes. Methods Mol Biol, 822, 249-260.
    • (2012) Methods Mol Biol , vol.822 , pp. 249-260
    • Ruepp, A.1    Kowarsch, A.2    Theis, F.3
  • 15
    • 0034072450 scopus 로고    scopus 로고
    • DNA binding sites: Representation and discovery
    • Stormo, G.D. (2000) DNA binding sites: representation and discovery. Bioinformatics, 16, 16-23.
    • (2000) Bioinformatics , vol.16 , pp. 16-23
    • Stormo, G.D.1
  • 17
    • 38049148026 scopus 로고    scopus 로고
    • DAVID knowledgebase: A gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis
    • Sherman, B.T., Huang da, W., Tan, Q., Guo, Y., Bour, S., Liu, D., Stephens, R., Baseler, M.W., Lane, H.C. and Lempicki, R.A. (2007) DAVID knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis. BMC Bioinformatics, 8, 426.
    • (2007) BMC Bioinformatics , vol.8 , pp. 426
    • Sherman, B.T.1    Huang Da, W.2    Tan, Q.3    Guo, Y.4    Bour, S.5    Liu, D.6    Stephens, R.7    Baseler, M.W.8    Lane, H.C.9    Lempicki, R.A.10
  • 18
    • 33750946376 scopus 로고    scopus 로고
    • Functional interpretation of microarray experiments
    • Dopazo, J. (2006) Functional interpretation of microarray experiments. Omics, 10, 398-410.
    • (2006) Omics , vol.10 , pp. 398-410
    • Dopazo, J.1
  • 19
    • 67849114236 scopus 로고    scopus 로고
    • Pscan: Finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes
    • Zambelli, F., Pesole, G. and Pavesi, G. (2009) Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes. Nucleic Acids Res, 37, W247-252.
    • (2009) Nucleic Acids Res , vol.37
    • Zambelli, F.1    Pesole, G.2    Pavesi, G.3
  • 22
    • 3242891885 scopus 로고    scopus 로고
    • CARRIE web service: Automated transcriptional regulatory network inference and interactive analysis
    • Haverty, P.M., Frith, M.C. and Weng, Z. (2004) CARRIE web service: automated transcriptional regulatory network inference and interactive analysis. Nucleic Acids Res, 32, W213-W216.
    • (2004) Nucleic Acids Res , vol.32
    • Haverty, P.M.1    Frith, M.C.2    Weng, Z.3
  • 24
    • 67849101186 scopus 로고    scopus 로고
    • MicroRNA and mRNA integrated analysis (MMIA): A web tool for examining biological functions of microRNA expression
    • Nam, S., Li, M., Choi, K., Balch, C., Kim, S. and Nephew, K.P. (2009) MicroRNA and mRNA integrated analysis (MMIA): a web tool for examining biological functions of microRNA expression. Nucleic Acids Res, 37, W356-W362.
    • (2009) Nucleic Acids Res , vol.37
    • Nam, S.1    Li, M.2    Choi, K.3    Balch, C.4    Kim, S.5    Nephew, K.P.6
  • 25
    • 67849126820 scopus 로고    scopus 로고
    • Geneset2mirna: Finding the signature of cooperative mirna activities in the gene lists
    • Antonov, A.V., Dietmann, S., Wong, P., Lutter, D. and Mewes, H.W. (2009) GeneSet2miRNA: finding the signature of cooperative miRNA activities in the gene lists. Nucleic Acids Res, 37, W323-W328.
    • (2009) Nucleic Acids Res , vol.37
    • Antonov, A.V.1    Dietmann, S.2    Wong, P.3    Lutter, D.4    Mewes, H.W.5
  • 26
    • 79960022362 scopus 로고    scopus 로고
    • Mirvestigator: Web application to identify mirnas responsible for co-regulated gene expression patterns discovered through transcriptome profiling
    • Plaisier, C.L., Bare, J.C. and Baliga, N.S. (2011) miRvestigator: web application to identify miRNAs responsible for co-regulated gene expression patterns discovered through transcriptome profiling. Nucleic Acids Res, 39, W125-W131.
    • (2011) Nucleic Acids Res , vol.39
    • Plaisier, C.L.1    Bare, J.C.2    Baliga, N.S.3
  • 27
    • 77955043355 scopus 로고    scopus 로고
    • MiRror: A combinatorial analysis web tool for ensembles of microRNAs and their targets
    • Friedman, Y., Naamati, G. and Linial, M. (2010) MiRror: a combinatorial analysis web tool for ensembles of microRNAs and their targets. Bioinformatics, 26, 1920-1921.
    • (2010) Bioinformatics , vol.26 , pp. 1920-1921
    • Friedman, Y.1    Naamati, G.2    Linial, M.3
  • 28
    • 79959997653 scopus 로고    scopus 로고
    • MirConnX: Condition-specific mRNA-microRNA network integrator
    • Huang, G.T., Athanassiou, C. and Benos, P.V. (2011) mirConnX: condition-specific mRNA-microRNA network integrator. Nucleic Acids Res, 39, W416-W423.
    • (2011) Nucleic Acids Res , vol.39
    • Huang, G.T.1    Athanassiou, C.2    Benos, P.V.3
  • 30
    • 58549112996 scopus 로고    scopus 로고
    • Bioinformatics enrichment tools: Paths toward the comprehensive functional analysis of large gene lists
    • Huang da, W., Sherman, B.T. and Lempicki, R.A. (2009) Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res, 37, 1-13.
    • (2009) Nucleic Acids Res , vol.37 , pp. 1-13
    • Huang Da, W.1    Sherman, B.T.2    Lempicki, R.A.3
  • 31
    • 33744481750 scopus 로고    scopus 로고
    • Molecular pathogenesis of fanconi anemia: Recent progress
    • Taniguchi, T. and D'Andrea, A.D. (2006) Molecular pathogenesis of Fanconi anemia: recent progress. Blood, 107, 4223-4233.
    • (2006) Blood , vol.107 , pp. 4223-4233
    • Taniguchi, T.1    D'Andrea, A.D.2
  • 34
    • 79961040243 scopus 로고    scopus 로고
    • Fanconi anemia core complex gene promoters harbor conserved transcription regulatory elements
    • Meier, D. and Schindler, D. (2011) Fanconi anemia core complex gene promoters harbor conserved transcription regulatory elements. PLoS ONE, 6, e22911.
    • (2011) PLoS ONE , vol.6
    • Meier, D.1    Schindler, D.2
  • 35
    • 80053459622 scopus 로고    scopus 로고
    • Areca nut induces mir-23a and inhibits repair of DNA double-strand breaks by targeting FANCG
    • Tsai, Y.S., Lin, C.S., Chiang, S.L., Lee, C.H., Lee, K.W. and Ko, Y.C. (2011) Areca nut induces miR-23a and inhibits repair of DNA double-strand breaks by targeting FANCG. Toxicol Sci, 123, 480-490.
    • (2011) Toxicol Sci , vol.123 , pp. 480-490
    • Tsai, Y.S.1    Lin, C.S.2    Chiang, S.L.3    Lee, C.H.4    Lee, K.W.5    Ko, Y.C.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.