The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
Identifieur interne : 001426 ( Pmc/Checkpoint ); précédent : 001425; suivant : 001427The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
Auteurs : Laurence Ettwiller [Royaume-Uni] ; Benedict Paten [Royaume-Uni] ; Marcel Souren [Allemagne] ; Felix Loosli [Allemagne] ; Jochen Wittbrodt [Allemagne] ; Ewan Birney [Royaume-Uni]Source :
- Genome Biology [ 1465-6906 ] ; 2005.
Abstract
Several new methods and a specific alignment tool for investigating transcriptional motifs in vertebrates were used to identify all possible 12mers involved in transcription. Active instances of these motifs were identified using comparative analysis across vertebrates.
Url:
DOI: 10.1186/gb-2005-6-12-r104
PubMed: 16356267
PubMed Central: 1414082
Affiliations:
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<front><journal-meta><journal-id journal-id-type="nlm-ta">Genome Biol</journal-id><journal-title>Genome Biology</journal-title><issn pub-type="ppub">1465-6906</issn><issn pub-type="epub">1465-6914</issn><publisher><publisher-name>BioMed Central</publisher-name><publisher-loc>London</publisher-loc></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">16356267</article-id><article-id pub-id-type="pmc">1414082</article-id><article-id pub-id-type="publisher-id">gb-2005-6-12-r104</article-id><article-id pub-id-type="doi">10.1186/gb-2005-6-12-r104</article-id><article-categories><subj-group subj-group-type="heading"><subject>Method</subject></subj-group></article-categories><title-group><article-title>The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates</article-title></title-group><contrib-group><contrib id="A1" equal-contrib="yes" contrib-type="author"><name><surname>Ettwiller</surname><given-names>Laurence</given-names></name><xref ref-type="aff" rid="I1">1</xref><email>Laurence.Ettwiller@espci.fr</email></contrib><contrib id="A2" equal-contrib="yes" contrib-type="author"><name><surname>Paten</surname><given-names>Benedict</given-names></name><xref ref-type="aff" rid="I1">1</xref><email>bjp@ebi.ac.uk</email></contrib><contrib id="A3" equal-contrib="yes" contrib-type="author"><name><surname>Souren</surname><given-names>Marcel</given-names></name><xref ref-type="aff" rid="I2">2</xref><email>Marcel.Souren@embl.de</email></contrib><contrib id="A4" contrib-type="author"><name><surname>Loosli</surname><given-names>Felix</given-names></name><xref ref-type="aff" rid="I2">2</xref><email>loosli@embl.de</email></contrib><contrib id="A5" contrib-type="author"><name><surname>Wittbrodt</surname><given-names>Jochen</given-names></name><xref ref-type="aff" rid="I2">2</xref><email>wittbrod@embl.de</email></contrib><contrib id="A6" corresp="yes" contrib-type="author"><name><surname>Birney</surname><given-names>Ewan</given-names></name><xref ref-type="aff" rid="I1">1</xref><email>birney@ebi.ac.uk</email></contrib></contrib-group><aff id="I1"><label>1</label>EBI, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK</aff><aff id="I2"><label>2</label>EMBL, Meyerhofstrasse, 69012 Heidelberg, Germany</aff><pub-date pub-type="ppub"><year>2005</year></pub-date><pub-date pub-type="epub"><day>2</day><month>12</month><year>2005</year></pub-date><volume>6</volume><issue>12</issue><fpage>R104</fpage><lpage>R104</lpage><ext-link ext-link-type="uri" xlink:href="http://genomebiology.com/2005/6/12/R104"></ext-link><history><date date-type="received"><day>22</day><month>8</month><year>2005</year></date><date date-type="rev-recd"><day>18</day><month>10</month><year>2005</year></date><date date-type="accepted"><day>8</day><month>11</month><year>2005</year></date></history><copyright-statement>Copyright © 2005 Ettwiller et al.; licensee BioMed Central Ltd.</copyright-statement><license license-type="open-access" xlink:href="http://creativecommons.org/licenses/by/2.0"><p>This is an open access article distributed under the terms of the Creative Commons Attribution License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/2.0"></ext-link>), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.</p></license><abstract abstract-type="short"><p>Several new methods and a specific alignment tool for investigating transcriptional motifs in vertebrates were used to identify all possible 12mers involved in transcription. Active instances of these motifs were identified using comparative analysis across vertebrates.</p></abstract><abstract><p>We have developed several new methods to investigate transcriptional motifs in vertebrates. We developed a specific alignment tool appropriate for regions involved in transcription control, and exhaustively enumerated all possible 12-mers for involvement in transcription by virtue of their mammalian conservation. We then used deeper comparative analysis across vertebrates to identify the active instances of these motifs. We have shown experimentally in Medaka fish that a subset of these predictions is involved in transcription.</p></abstract></article-meta></front></pmc><affiliations><list><country><li>Allemagne</li><li>Royaume-Uni</li></country></list><tree><country name="Royaume-Uni"><noRegion><name sortKey="Ettwiller, Laurence" sort="Ettwiller, Laurence" uniqKey="Ettwiller L" first="Laurence" last="Ettwiller">Laurence Ettwiller</name></noRegion><name sortKey="Birney, Ewan" sort="Birney, Ewan" uniqKey="Birney E" first="Ewan" last="Birney">Ewan Birney</name><name sortKey="Paten, Benedict" sort="Paten, Benedict" uniqKey="Paten B" first="Benedict" last="Paten">Benedict Paten</name></country><country name="Allemagne"><noRegion><name sortKey="Souren, Marcel" sort="Souren, Marcel" uniqKey="Souren M" first="Marcel" last="Souren">Marcel Souren</name></noRegion><name sortKey="Loosli, Felix" sort="Loosli, Felix" uniqKey="Loosli F" first="Felix" last="Loosli">Felix Loosli</name><name sortKey="Wittbrodt, Jochen" sort="Wittbrodt, Jochen" uniqKey="Wittbrodt J" first="Jochen" last="Wittbrodt">Jochen Wittbrodt</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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