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Volumn 38, Issue SUPPL. 2, 2010, Pages

R spider: A network-based analysis of gene lists by combining signaling and metabolic pathways from Reactome and KEGG databases

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER NETWORK; COMPUTER PROGRAM; GENE IDENTIFICATION; GENE LIST; GENE REGULATORY NETWORK; GENETIC ANALYSIS; GENETIC DATABASE; GENOMICS; HIGH THROUGHPUT SCREENING; KNOWLEDGE BASE; METABOLISM; ONLINE ANALYSIS; PRIORITY JOURNAL; SIGNAL TRANSDUCTION; COMPUTER GRAPHICS; COMPUTER INTERFACE; GENETICS; HUMAN; INTERNET; PROTEIN ANALYSIS; PROTEIN DATABASE; SYSTEM ANALYSIS;

EID: 77954275721     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkq482     Document Type: Article
Times cited : (59)

References (37)
  • 4
    • 34547571030 scopus 로고    scopus 로고
    • g:Profiler-a web-based toolset for functional profiling of gene lists from large-scale experiments
    • Reimand, J., Kull, M., Peterson, H., Hansen, J. and Vilo, J. (2007) g:Profiler-a web-based toolset for functional profiling of gene lists from large-scale experiments. Nucleic Acids Res., 35, W193-W200.
    • (2007) Nucleic Acids Res. , vol.35
    • Reimand, J.1    Kull, M.2    Peterson, H.3    Hansen, J.4    Vilo, J.5
  • 5
    • 3242880832 scopus 로고    scopus 로고
    • GFINDer: Genome Function INtegrated Discoverer through dynamic annotation, statistical analysis, and mining
    • Masseroli, M., Martucci, D. and Pinciroli, F. (2004) GFINDer: Genome Function INtegrated Discoverer through dynamic annotation, statistical analysis, and mining. Nucleic Acids Res., 32, W293-W300.
    • (2004) Nucleic Acids Res. , vol.32
    • Masseroli, M.1    Martucci, D.2    Pinciroli, F.3
  • 6
    • 20444365683 scopus 로고    scopus 로고
    • GOToolBox: functional analysis of gene datasets based on Gene Ontology
    • Martin, D., Brun, C., Remy, E., Mouren, P., Thieffry, D. and Jacq, B. (2004) GOToolBox: functional analysis of gene datasets based on Gene Ontology. Genome Biol., 5, R101.
    • (2004) Genome Biol. , vol.5
    • Martin, D.1    Brun, C.2    Remy, E.3    Mouren, P.4    Thieffry, D.5    Jacq, B.6
  • 8
    • 62549099082 scopus 로고    scopus 로고
    • The DICS repository: module-assisted analysis of disease-related gene lists
    • Dietmann, S., Georgii, E., Antonov, A., Tsuda, K. and Mewes, H.W. (2009) The DICS repository: module-assisted analysis of disease-related gene lists. Bioinformatics, 25, 830-831.
    • (2009) Bioinformatics , vol.25 , pp. 830-831
    • Dietmann, S.1    Georgii, E.2    Antonov, A.3    Tsuda, K.4    Mewes, H.W.5
  • 10
    • 48449095135 scopus 로고    scopus 로고
    • ProfCom: a web tool for profiling the complex functionality of gene groups identified from high-throughput data
    • Antonov, A.V., Schmidt, T., Wang, Y. and Mewes, H.W. (2008) ProfCom: a web tool for profiling the complex functionality of gene groups identified from high-throughput data. Nucleic Acids Res., 36, W347-W351.
    • (2008) Nucleic Acids Res. , vol.36
    • Antonov, A.V.1    Schmidt, T.2    Wang, Y.3    Mewes, H.W.4
  • 11
    • 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
  • 12
    • 3242887152 scopus 로고    scopus 로고
    • Onto-Tools: an ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments
    • Khatri, P., Bhavsar, P., Bawa, G. and Draghici, S. (2004) Onto-Tools: an ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments. Nucleic Acids Res., 32, W449-W456.
    • (2004) Nucleic Acids Res. , vol.32
    • Khatri, P.1    Bhavsar, P.2    Bawa, G.3    Draghici, S.4
  • 13
    • 33745626459 scopus 로고    scopus 로고
    • Improved scoring of functional groups from gene expression data by decorrelating GO graph structure 2
    • Alexa, A., Rahnenfuhrer, J. and Lengauer, T. (2006) Improved scoring of functional groups from gene expression data by decorrelating GO graph structure 2. Bioinformatics, 22, 1600-1607.
    • (2006) Bioinformatics , vol.22 , pp. 1600-1607
    • Alexa, A.1    Rahnenfuhrer, J.2    Lengauer, T.3
  • 15
    • 48449099258 scopus 로고    scopus 로고
    • GraphWeb: mining heterogeneous biological networks for gene modules with functional significance
    • Reimand, J., Tooming, L., Peterson, H., Adler, P. and Vilo, J. (2008) GraphWeb: mining heterogeneous biological networks for gene modules with functional significance. Nucleic Acids Res., 36, W347-W351.
    • (2008) Nucleic Acids Res. , vol.36
    • Reimand, J.1    Tooming, L.2    Peterson, H.3    Adler, P.4    Vilo, J.5
  • 16
    • 36349011849 scopus 로고    scopus 로고
    • Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases
    • Berger, S.I., Posner, J.M. and Ma'ayan, A. (2007) Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases. BMC Bioinformatics, 8, 372.
    • (2007) BMC Bioinformatics , vol.8 , pp. 372
    • Berger, S.I.1    Posner, J.M.2    Ma'ayan, A.3
  • 19
    • 60849114746 scopus 로고    scopus 로고
    • KEGG spider: interpretation of genomics data in the context of the global gene metabolic network
    • Antonov, A.V., Dietmann, S. and Mewes, H.W. (2008) KEGG spider: interpretation of genomics data in the context of the global gene metabolic network. Genome Biol., 9, R179.
    • (2008) Genome Biol. , vol.9
    • Antonov, A.V.1    Dietmann, S.2    Mewes, H.W.3
  • 20
    • 66449132301 scopus 로고    scopus 로고
    • PPI spider: a tool for the interpretation of proteomics data in the context of protein-protein interaction networks
    • Antonov, A.V., Dietmann, S., Rodchenkov, I. and Mewes, H.W. (2009) PPI spider: a tool for the interpretation of proteomics data in the context of protein-protein interaction networks. Proteomics, 9, 2740-2749.
    • (2009) Proteomics , vol.9 , pp. 2740-2749
    • Antonov, A.V.1    Dietmann, S.2    Rodchenkov, I.3    Mewes, H.W.4
  • 21
    • 24644470505 scopus 로고    scopus 로고
    • Ontological analysis of gene expression data: current tools, limitations, and open problems
    • Khatri, P. and Draghici, S. (2005) Ontological analysis of gene expression data: current tools, limitations, and open problems. Bioinformatics, 21, 3587-3595.
    • (2005) Bioinformatics , vol.21 , pp. 3587-3595
    • Khatri, P.1    Draghici, S.2
  • 26
    • 33745470929 scopus 로고    scopus 로고
    • Robustness trade-offs and host-microbial symbiosis in the immune system4
    • Kitano, H. and Oda, K. (2006) Robustness trade-offs and host-microbial symbiosis in the immune system4. Mol. Syst. Biol., 2, 2006.
    • (2006) Mol. Syst. Biol. , vol.2 , pp. 2006
    • Kitano, H.1    Oda, K.2
  • 28
    • 31444442766 scopus 로고    scopus 로고
    • BIOREL: the benchmark resource to estimate the relevance of the gene networks
    • Antonov, A.V. and Mewes, H.W. (2006) BIOREL: the benchmark resource to estimate the relevance of the gene networks. FEBS Lett., 580, 844-848.
    • (2006) FEBS Lett. , vol.580 , pp. 844-848
    • Antonov, A.V.1    Mewes, H.W.2
  • 32
    • 33846057724 scopus 로고    scopus 로고
    • NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
    • Pruitt, K.D., Tatusova, T. and Maglott, D.R. (2007) NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res., 35, D61-D65.
    • (2007) Nucleic Acids Res. , vol.35
    • Pruitt, K.D.1    Tatusova, T.2    Maglott, D.R.3
  • 34
    • 28944452690 scopus 로고    scopus 로고
    • Medusa: a simple tool for interaction graph analysis
    • Hooper, S.D. and Bork, P. (2005) Medusa: a simple tool for interaction graph analysis. Bioinformatics, 21, 4432-4433.
    • (2005) Bioinformatics , vol.21 , pp. 4432-4433
    • Hooper, S.D.1    Bork, P.2
  • 36
    • 65249136464 scopus 로고    scopus 로고
    • PLIPS, an automatically collected database of protein lists reported by proteomics studies
    • Antonov, A.V., Dietmann, S., Wong, P., Igor, R. and Mewes, H.W. (2009) PLIPS, an automatically collected database of protein lists reported by proteomics studies. J. Proteome. Res., 8, 1193-1197.
    • (2009) J. Proteome. Res. , vol.8 , pp. 1193-1197
    • Antonov, A.V.1    Dietmann, S.2    Wong, P.3    Igor, R.4    Mewes, H.W.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.