PubMeth: a cancer methylation database combining text-mining and expert annotation
Identifieur interne : 001430 ( Main/Exploration ); précédent : 001429; suivant : 001431PubMeth: a cancer methylation database combining text-mining and expert annotation
Auteurs : Maté Ongenaert ; Leander Van Neste ; Tim De Meyer ; Gerben Menschaert ; Sofie Bekaert ; Wim Van CriekingeSource :
- Nucleic Acids Research [ 0305-1048 ] ; 2007.
Abstract
Epigenetics, and more specifically DNA methylation is a fast evolving research area. In almost every cancer type, each month new publications confirm the differentiated regulation of specific genes due to methylation and mention the discovery of novel methylation markers. Therefore, it would be extremely useful to have an annotated, reviewed, sorted and summarized overview of all available data. PubMeth is a cancer methylation database that includes genes that are reported to be methylated in various cancer types. A query can be based either on genes (to check in which cancer types the genes are reported as being methylated) or on cancer types (which genes are reported to be methylated in the cancer (sub) types of interest). The database is freely accessible at
PubMeth is based on text-mining of Medline/PubMed abstracts, combined with manual reading and annotation of preselected abstracts. The text-mining approach results in increased speed and selectivity (as for instance many different aliases of a gene are searched at once), while the manual screening significantly raises the specificity and quality of the database. The summarized overview of the results is very useful in case more genes or cancer types are searched at the same time.
Url:
DOI: 10.1093/nar/gkm788
PubMed: 17932060
PubMed Central: 2238841
Affiliations:
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Le document en format XML
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In almost every cancer type, each month new publications confirm the differentiated regulation of specific genes due to methylation and mention the discovery of novel methylation markers. Therefore, it would be extremely useful to have an annotated, reviewed, sorted and summarized overview of all available data. PubMeth is a cancer methylation database that includes genes that are reported to be methylated in various cancer types. A query can be based either on genes (to check in which cancer types the genes are reported as being methylated) or on cancer types (which genes are reported to be methylated in the cancer (sub) types of interest). The database is freely accessible at <ext-link ext-link-type="uri" xlink:href="http://www.pubmeth.org">http://www.pubmeth.org</ext-link>.</p><p>PubMeth is based on text-mining of Medline/PubMed abstracts, combined with manual reading and annotation of preselected abstracts. The text-mining approach results in increased speed and selectivity (as for instance many different aliases of a gene are searched at once), while the manual screening significantly raises the specificity and quality of the database. The summarized overview of the results is very useful in case more genes or cancer types are searched at the same time.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Doerfler, W" uniqKey="Doerfler W">W Doerfler</name></author><author><name sortKey="Toth, M" uniqKey="Toth M">M Toth</name></author><author><name sortKey="Kochanek, S" uniqKey="Kochanek S">S Kochanek</name></author><author><name sortKey="Achten, S" uniqKey="Achten S">S Achten</name></author><author><name sortKey="Freisemrabien, U" uniqKey="Freisemrabien U">U Freisemrabien</name></author><author><name sortKey="Behnkrappa, A" uniqKey="Behnkrappa A">A Behnkrappa</name></author><author><name sortKey="Orend, G" uniqKey="Orend G">G Orend</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Herman, Jg" uniqKey="Herman J">JG Herman</name></author><author><name sortKey="Baylin, Sb" uniqKey="Baylin S">SB Baylin</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Robertson, Kd" uniqKey="Robertson K">KD Robertson</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Esteller, M" uniqKey="Esteller M">M Esteller</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Amoreira, C" uniqKey="Amoreira C">C Amoreira</name></author><author><name sortKey="Hindermann, W" uniqKey="Hindermann W">W Hindermann</name></author><author><name sortKey="Grunau, C" uniqKey="Grunau C">C Grunau</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pattyn, F" uniqKey="Pattyn F">F Pattyn</name></author><author><name sortKey="Hoebeeck, J" uniqKey="Hoebeeck J">J Hoebeeck</name></author><author><name sortKey="Robbrecht, P" uniqKey="Robbrecht P">P Robbrecht</name></author><author><name sortKey="Michels, E" uniqKey="Michels E">E Michels</name></author><author><name sortKey="De, Pa" uniqKey="De P">PA De</name></author><author><name sortKey="Bottu, G" uniqKey="Bottu G">G Bottu</name></author><author><name sortKey="Coornaert, D" uniqKey="Coornaert D">D Coornaert</name></author><author><name sortKey="Herzog, R" uniqKey="Herzog R">R Herzog</name></author><author><name sortKey="Speleman, F" uniqKey="Speleman F">F Speleman</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Garber, K" uniqKey="Garber K">K Garber</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rebhan, M" uniqKey="Rebhan M">M Rebhan</name></author><author><name sortKey="Chalifa Caspi, V" uniqKey="Chalifa Caspi V">V Chalifa-Caspi</name></author><author><name sortKey="Prilusky, J" uniqKey="Prilusky J">J Prilusky</name></author><author><name sortKey="Lancet, D" uniqKey="Lancet D">D Lancet</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Agrawal, A" uniqKey="Agrawal A">A Agrawal</name></author><author><name sortKey="Murphy, Rf" uniqKey="Murphy R">RF Murphy</name></author><author><name sortKey="Agrawal, Dk" uniqKey="Agrawal D">DK Agrawal</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list></list><tree><noCountry><name sortKey="Bekaert, Sofie" sort="Bekaert, Sofie" uniqKey="Bekaert S" first="Sofie" last="Bekaert">Sofie Bekaert</name><name sortKey="De Meyer, Tim" sort="De Meyer, Tim" uniqKey="De Meyer T" first="Tim" last="De Meyer">Tim De Meyer</name><name sortKey="Menschaert, Gerben" sort="Menschaert, Gerben" uniqKey="Menschaert G" first="Gerben" last="Menschaert">Gerben Menschaert</name><name sortKey="Ongenaert, Mate" sort="Ongenaert, Mate" uniqKey="Ongenaert M" first="Maté" last="Ongenaert">Maté Ongenaert</name><name sortKey="Van Criekinge, Wim" sort="Van Criekinge, Wim" uniqKey="Van Criekinge W" first="Wim" last="Van Criekinge">Wim Van Criekinge</name><name sortKey="Van Neste, Leander" sort="Van Neste, Leander" uniqKey="Van Neste L" first="Leander" last="Van Neste">Leander Van Neste</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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