CCancer: a bird’s eye view on gene lists reported in cancer-related studies
Identifieur interne : 004227 ( Pmc/Curation ); précédent : 004226; suivant : 004228CCancer: a bird’s eye view on gene lists reported in cancer-related studies
Auteurs : Sabine Dietmann [Allemagne] ; Wanseon Lee [Allemagne] ; Philip Wong [Allemagne] ; Igor Rodchenkov [Canada] ; Alexey V. Antonov [Allemagne]Source :
- Nucleic Acids Research [ 0305-1048 ] ; 2010.
Abstract
CCancer is an automatically collected database of gene lists, which were reported mostly by experimental studies in various biological and clinical contexts. At the moment, the database covers 3369 gene lists extracted from 2644 papers published in ∼80 peer-reviewed journals. As input, CCancer accepts a gene list. An enrichment analyses is implemented to generate, as output, a highly informative survey over recently published studies that report gene lists, which significantly intersect with the query gene list. A report on gene pairs from the input list which were frequently reported together by other biological studies is also provided. CCancer is freely available at
Url:
DOI: 10.1093/nar/gkq515
PubMed: 20529879
PubMed Central: 2896190
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Antonov</name><affiliation wicri:level="1"><nlm:aff wicri:cut=" and" id="AFF1">Helmholtz Center Munich, German Research Center for Environmental Health (GmbH), Institute for Bioinformatics and Systems Biology, Ingolstädter Landstraße 1, D-85764 Neuherberg, Germany</nlm:aff><country xml:lang="fr">Allemagne</country><wicri:regionArea>Helmholtz Center Munich, German Research Center for Environmental Health (GmbH), Institute for Bioinformatics and Systems Biology, Ingolstädter Landstraße 1, D-85764 Neuherberg</wicri:regionArea></affiliation></author></analytic><series><title level="j">Nucleic Acids Research</title><idno type="ISSN">0305-1048</idno><idno type="eISSN">1362-4962</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>CCancer is an automatically collected database of gene lists, which were reported mostly by experimental studies in various biological and clinical contexts. At the moment, the database covers 3369 gene lists extracted from 2644 papers published in ∼80 peer-reviewed journals. As input, CCancer accepts a gene list. An enrichment analyses is implemented to generate, as output, a highly informative survey over recently published studies that report gene lists, which significantly intersect with the query gene list. A report on gene pairs from the input list which were frequently reported together by other biological studies is also provided. CCancer is freely available at <ext-link ext-link-type="uri" xlink:href="http://mips.helmholtz-muenchen.de/proj/ccancer">http://mips.helmholtz-muenchen.de/proj/ccancer</ext-link>.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Fernandes, Tg" uniqKey="Fernandes T">TG Fernandes</name></author><author><name sortKey="Diogo, Mm" uniqKey="Diogo M">MM Diogo</name></author><author><name sortKey="Clark, Ds" uniqKey="Clark D">DS Clark</name></author><author><name sortKey="Dordick, Js" uniqKey="Dordick J">JS Dordick</name></author><author><name sortKey="Cabral, Jm" uniqKey="Cabral J">JM Cabral</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Powell, Ak" uniqKey="Powell A">AK Powell</name></author><author><name sortKey="Zhi, Zl" uniqKey="Zhi Z">ZL Zhi</name></author><author><name sortKey="Turnbull, Je" uniqKey="Turnbull J">JE 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<front><journal-meta><journal-id journal-id-type="nlm-ta">Nucleic Acids Res</journal-id><journal-id journal-id-type="iso-abbrev">Nucleic Acids Res</journal-id><journal-id journal-id-type="publisher-id">nar</journal-id><journal-id journal-id-type="hwp">nar</journal-id><journal-title-group><journal-title>Nucleic Acids Research</journal-title></journal-title-group><issn pub-type="ppub">0305-1048</issn><issn pub-type="epub">1362-4962</issn><publisher><publisher-name>Oxford University Press</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">20529879</article-id><article-id pub-id-type="pmc">2896190</article-id><article-id pub-id-type="doi">10.1093/nar/gkq515</article-id><article-id pub-id-type="publisher-id">gkq515</article-id><article-categories><subj-group subj-group-type="heading"><subject>Articles</subject></subj-group></article-categories><title-group><article-title>CCancer: a bird’s eye view on gene lists reported in cancer-related studies</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Dietmann</surname><given-names>Sabine</given-names></name><xref ref-type="aff" rid="AFF1"><sup>1</sup></xref></contrib><contrib contrib-type="author"><name><surname>Lee</surname><given-names>Wanseon</given-names></name><xref ref-type="aff" rid="AFF1"><sup>2</sup></xref></contrib><contrib contrib-type="author"><name><surname>Wong</surname><given-names>Philip</given-names></name><xref ref-type="aff" rid="AFF1"><sup>2</sup></xref></contrib><contrib contrib-type="author"><name><surname>Rodchenkov</surname><given-names>Igor</given-names></name><xref ref-type="aff" rid="AFF1"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Antonov</surname><given-names>Alexey V.</given-names></name><xref ref-type="aff" rid="AFF1"><sup>2</sup></xref><xref ref-type="corresp" rid="COR1">*</xref></contrib></contrib-group><aff id="AFF1"><sup>1</sup>Freiburg Center for Data Analysis and Modeling, University of Freiburg, Eckerstr. 1, D-79104 Freiburg,<sup>2</sup>Helmholtz Center Munich, German Research Center for Environmental Health (GmbH), Institute for Bioinformatics and Systems Biology, Ingolstädter Landstraße 1, D-85764 Neuherberg, Germany and<sup>3</sup>Faculty of Medicine, University of Toronto, BBDMR, CCBR, 160 College Street, Toronto, ON, Canada</aff><author-notes><corresp id="COR1">*To whom correspondence should be addressed. Tel: <phone>+49 (0) 89 3187 2788</phone>; Fax: <fax>+49 (0) 89 3187 3585</fax>; Email: <email>a.antonov@helmholtz-muenchen.de</email></corresp></author-notes><pub-date pub-type="ppub"><day>1</day><month>7</month><year>2010</year></pub-date><pub-date pub-type="epub"><day>6</day><month>6</month><year>2010</year></pub-date><pub-date pub-type="pmc-release"><day>5</day><month>6</month><year>2010</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
<volume>38</volume><issue>Web Server issue</issue><fpage>W118</fpage><lpage>W123</lpage><history><date date-type="received"><day>30</day><month>1</month><year>2010</year></date><date date-type="rev-recd"><day>27</day><month>4</month><year>2010</year></date><date date-type="accepted"><day>21</day><month>5</month><year>2010</year></date></history><permissions><copyright-statement>© The Author(s) 2010. Published by Oxford University Press.</copyright-statement><copyright-year>2010</copyright-year><license license-type="creative-commons" xlink:href="http://creativecommons.org/licenses/by-nc/2.5"><license-p><pmc-comment>CREATIVE COMMONS</pmc-comment>This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by-nc/2.5">http://creativecommons.org/licenses/by-nc/2.5</ext-link>), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p></license></permissions><abstract><p>CCancer is an automatically collected database of gene lists, which were reported mostly by experimental studies in various biological and clinical contexts. At the moment, the database covers 3369 gene lists extracted from 2644 papers published in ∼80 peer-reviewed journals. As input, CCancer accepts a gene list. An enrichment analyses is implemented to generate, as output, a highly informative survey over recently published studies that report gene lists, which significantly intersect with the query gene list. A report on gene pairs from the input list which were frequently reported together by other biological studies is also provided. CCancer is freely available at <ext-link ext-link-type="uri" xlink:href="http://mips.helmholtz-muenchen.de/proj/ccancer">http://mips.helmholtz-muenchen.de/proj/ccancer</ext-link>.</p></abstract></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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