ORESTES are enriched in rare exon usage variants affecting the encoded proteins
A significant fraction of the variability found in the human transcriptome is due to alternative splicing, including alternative exon usage (AEU), intron retention and use of cryptic splice sites. We present a comparison of a large-scale analysis of AEU in the human transcriptome through genome mapp...
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| Veröffentlicht in: | Comptes rendus. Biologies 2003-10, Vol.326 (10), p.979-985 |
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| creator | Sakabe, Noboru Jo de Souza, Jorge E.S Galante, Pedro A.F de Oliveira, Paulo S.L Passetti, Fábio Brentani, Helena Osório, Elisson C Zaiats, André C Leerkes, Maarten R Kitajima, João Paulo Brentani, Ricardo R Strausberg, Robert L Simpson, Andrew J.G de Souza, Sandro José |
| description | A significant fraction of the variability found in the human transcriptome is due to alternative splicing, including alternative exon usage (AEU), intron retention and use of cryptic splice sites. We present a comparison of a large-scale analysis of AEU in the human transcriptome through genome mapping of Open Reading Frame ESTs (ORESTES) and conventional ESTs. It is shown here that ORESTES probe low abundant messages more efficiently. In addition, most of the variants detected by ORESTES affect the structure of the corresponding proteins.
To cite this article: N.J. Sakabe et al., C. R. Biologies 326 (2003).
Une fraction significative de la variabilité du transcriptome humain observée est due au
splicing alternatif, incluant l'utilisation alternative d'exon, la rétention d'intron et l'usage de sites cryptiques de
splicing. Nous présentons une analyse à grande échelle de l'utilisation alternative d'exon dans le transcriptome humain, par le biais de la cartographie génomique d'étiquettes d'ADNc conventionnelles ou de phases ouvertes de lectures (ORESTES). Il est montré que les étiquettes ORESTES représentent plus efficacement les ARN messagers de faible abondance. De plus, la plupart des variants détectés à l'aide des étiquettes ORESTES affectent la structure des protéines correspondantes.
Pour citer cet article : N.J. Sakabe et al., C. R. Biologies 326 (2003). |
| doi_str_mv | 10.1016/j.crvi.2003.09.027 |
| format | Article |
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To cite this article: N.J. Sakabe et al., C. R. Biologies 326 (2003).
Une fraction significative de la variabilité du transcriptome humain observée est due au
splicing alternatif, incluant l'utilisation alternative d'exon, la rétention d'intron et l'usage de sites cryptiques de
splicing. Nous présentons une analyse à grande échelle de l'utilisation alternative d'exon dans le transcriptome humain, par le biais de la cartographie génomique d'étiquettes d'ADNc conventionnelles ou de phases ouvertes de lectures (ORESTES). Il est montré que les étiquettes ORESTES représentent plus efficacement les ARN messagers de faible abondance. De plus, la plupart des variants détectés à l'aide des étiquettes ORESTES affectent la structure des protéines correspondantes.
Pour citer cet article : N.J. Sakabe et al., C. R. Biologies 326 (2003).</description><identifier>ISSN: 1631-0691</identifier><identifier>ISSN: 1768-3238</identifier><identifier>EISSN: 1768-3238</identifier><identifier>DOI: 10.1016/j.crvi.2003.09.027</identifier><identifier>PMID: 14744104</identifier><language>eng</language><publisher>France: Elsevier SAS</publisher><subject>alternative exon usage ; Alternative Splicing ; bioinformatics ; bioinformatique ; cartographie génomique ; Exons - genetics ; genome mapping ; Genome, Human ; human transcriptome ; Humans ; Open Reading Frames - genetics ; ORESTES ; splicing alternatif ; Transcription, Genetic ; transcriptome humain ; utilisation alternative d'exon ; étiquettes ORESTES</subject><ispartof>Comptes rendus. Biologies, 2003-10, Vol.326 (10), p.979-985</ispartof><rights>2003 Académie des sciences</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c383t-4818196eaabd824c55486d66defae46e69f408fb9c12794bda95dd72d83eca43</citedby><cites>FETCH-LOGICAL-c383t-4818196eaabd824c55486d66defae46e69f408fb9c12794bda95dd72d83eca43</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S1631069103002233$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65534</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/14744104$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Sakabe, Noboru Jo</creatorcontrib><creatorcontrib>de Souza, Jorge E.S</creatorcontrib><creatorcontrib>Galante, Pedro A.F</creatorcontrib><creatorcontrib>de Oliveira, Paulo S.L</creatorcontrib><creatorcontrib>Passetti, Fábio</creatorcontrib><creatorcontrib>Brentani, Helena</creatorcontrib><creatorcontrib>Osório, Elisson C</creatorcontrib><creatorcontrib>Zaiats, André C</creatorcontrib><creatorcontrib>Leerkes, Maarten R</creatorcontrib><creatorcontrib>Kitajima, João Paulo</creatorcontrib><creatorcontrib>Brentani, Ricardo R</creatorcontrib><creatorcontrib>Strausberg, Robert L</creatorcontrib><creatorcontrib>Simpson, Andrew J.G</creatorcontrib><creatorcontrib>de Souza, Sandro José</creatorcontrib><title>ORESTES are enriched in rare exon usage variants affecting the encoded proteins</title><title>Comptes rendus. Biologies</title><addtitle>C R Biol</addtitle><description>A significant fraction of the variability found in the human transcriptome is due to alternative splicing, including alternative exon usage (AEU), intron retention and use of cryptic splice sites. We present a comparison of a large-scale analysis of AEU in the human transcriptome through genome mapping of Open Reading Frame ESTs (ORESTES) and conventional ESTs. It is shown here that ORESTES probe low abundant messages more efficiently. In addition, most of the variants detected by ORESTES affect the structure of the corresponding proteins.
To cite this article: N.J. Sakabe et al., C. R. Biologies 326 (2003).
Une fraction significative de la variabilité du transcriptome humain observée est due au
splicing alternatif, incluant l'utilisation alternative d'exon, la rétention d'intron et l'usage de sites cryptiques de
splicing. Nous présentons une analyse à grande échelle de l'utilisation alternative d'exon dans le transcriptome humain, par le biais de la cartographie génomique d'étiquettes d'ADNc conventionnelles ou de phases ouvertes de lectures (ORESTES). Il est montré que les étiquettes ORESTES représentent plus efficacement les ARN messagers de faible abondance. De plus, la plupart des variants détectés à l'aide des étiquettes ORESTES affectent la structure des protéines correspondantes.
Pour citer cet article : N.J. Sakabe et al., C. R. Biologies 326 (2003).</description><subject>alternative exon usage</subject><subject>Alternative Splicing</subject><subject>bioinformatics</subject><subject>bioinformatique</subject><subject>cartographie génomique</subject><subject>Exons - genetics</subject><subject>genome mapping</subject><subject>Genome, Human</subject><subject>human transcriptome</subject><subject>Humans</subject><subject>Open Reading Frames - genetics</subject><subject>ORESTES</subject><subject>splicing alternatif</subject><subject>Transcription, Genetic</subject><subject>transcriptome humain</subject><subject>utilisation alternative d'exon</subject><subject>étiquettes ORESTES</subject><issn>1631-0691</issn><issn>1768-3238</issn><issn>1768-3238</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2003</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkF1LwzAUhoMobk7_gBfSK-9akyZNE_BGxvyAwcDtPmTJ6ZaxtTNph_57UzfwTq9yCO_znsOD0C3BGcGEP2wy4w8uyzGmGZYZzsszNCQlFynNqTiPM6ckxVySAboKYYMjJIviEg0IKxkjmA3RbPY-mS8m80R7SKD2zqzBJq5O_M_HZ1MnXdArSA7aO123IdFVBaZ19Spp1z1iGhuJvW9acHW4RheV3ga4Ob0jtHieLMav6XT28jZ-mqaGCtqmTBBBJAetl1bkzBQFE9xybqHSwDhwWTEsqqU0JC8lW1otC2vL3AoKRjM6QvfH2rj3o4PQqp0LBrZbXUPTBVWSAksq_g_SnFPM4k0jlB-DxjcheKjU3rud9l-KYNXrVhvV61a9boWlirojdHdq75Y7sL_IyW8MPB4DEF0cHHgVjIvOwDofLSrbuL_6vwFz1pDq</recordid><startdate>20031001</startdate><enddate>20031001</enddate><creator>Sakabe, Noboru Jo</creator><creator>de Souza, Jorge E.S</creator><creator>Galante, Pedro A.F</creator><creator>de Oliveira, Paulo S.L</creator><creator>Passetti, Fábio</creator><creator>Brentani, Helena</creator><creator>Osório, Elisson C</creator><creator>Zaiats, André C</creator><creator>Leerkes, Maarten R</creator><creator>Kitajima, João Paulo</creator><creator>Brentani, Ricardo R</creator><creator>Strausberg, Robert L</creator><creator>Simpson, Andrew J.G</creator><creator>de Souza, Sandro José</creator><general>Elsevier SAS</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7U5</scope><scope>8FD</scope><scope>L7M</scope><scope>7X8</scope></search><sort><creationdate>20031001</creationdate><title>ORESTES are enriched in rare exon usage variants affecting the encoded proteins</title><author>Sakabe, Noboru Jo ; de Souza, Jorge E.S ; Galante, Pedro A.F ; de Oliveira, Paulo S.L ; Passetti, Fábio ; Brentani, Helena ; Osório, Elisson C ; Zaiats, André C ; Leerkes, Maarten R ; Kitajima, João Paulo ; Brentani, Ricardo R ; Strausberg, Robert L ; Simpson, Andrew J.G ; de Souza, Sandro José</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c383t-4818196eaabd824c55486d66defae46e69f408fb9c12794bda95dd72d83eca43</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2003</creationdate><topic>alternative exon usage</topic><topic>Alternative Splicing</topic><topic>bioinformatics</topic><topic>bioinformatique</topic><topic>cartographie génomique</topic><topic>Exons - genetics</topic><topic>genome mapping</topic><topic>Genome, Human</topic><topic>human transcriptome</topic><topic>Humans</topic><topic>Open Reading Frames - genetics</topic><topic>ORESTES</topic><topic>splicing alternatif</topic><topic>Transcription, Genetic</topic><topic>transcriptome humain</topic><topic>utilisation alternative d'exon</topic><topic>étiquettes ORESTES</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sakabe, Noboru Jo</creatorcontrib><creatorcontrib>de Souza, Jorge E.S</creatorcontrib><creatorcontrib>Galante, Pedro A.F</creatorcontrib><creatorcontrib>de Oliveira, Paulo S.L</creatorcontrib><creatorcontrib>Passetti, Fábio</creatorcontrib><creatorcontrib>Brentani, Helena</creatorcontrib><creatorcontrib>Osório, Elisson C</creatorcontrib><creatorcontrib>Zaiats, André C</creatorcontrib><creatorcontrib>Leerkes, Maarten R</creatorcontrib><creatorcontrib>Kitajima, João Paulo</creatorcontrib><creatorcontrib>Brentani, Ricardo R</creatorcontrib><creatorcontrib>Strausberg, Robert L</creatorcontrib><creatorcontrib>Simpson, Andrew J.G</creatorcontrib><creatorcontrib>de Souza, Sandro José</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Solid State and Superconductivity Abstracts</collection><collection>Technology Research Database</collection><collection>Advanced Technologies Database with Aerospace</collection><collection>MEDLINE - Academic</collection><jtitle>Comptes rendus. Biologies</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sakabe, Noboru Jo</au><au>de Souza, Jorge E.S</au><au>Galante, Pedro A.F</au><au>de Oliveira, Paulo S.L</au><au>Passetti, Fábio</au><au>Brentani, Helena</au><au>Osório, Elisson C</au><au>Zaiats, André C</au><au>Leerkes, Maarten R</au><au>Kitajima, João Paulo</au><au>Brentani, Ricardo R</au><au>Strausberg, Robert L</au><au>Simpson, Andrew J.G</au><au>de Souza, Sandro José</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>ORESTES are enriched in rare exon usage variants affecting the encoded proteins</atitle><jtitle>Comptes rendus. Biologies</jtitle><addtitle>C R Biol</addtitle><date>2003-10-01</date><risdate>2003</risdate><volume>326</volume><issue>10</issue><spage>979</spage><epage>985</epage><pages>979-985</pages><issn>1631-0691</issn><issn>1768-3238</issn><eissn>1768-3238</eissn><abstract>A significant fraction of the variability found in the human transcriptome is due to alternative splicing, including alternative exon usage (AEU), intron retention and use of cryptic splice sites. We present a comparison of a large-scale analysis of AEU in the human transcriptome through genome mapping of Open Reading Frame ESTs (ORESTES) and conventional ESTs. It is shown here that ORESTES probe low abundant messages more efficiently. In addition, most of the variants detected by ORESTES affect the structure of the corresponding proteins.
To cite this article: N.J. Sakabe et al., C. R. Biologies 326 (2003).
Une fraction significative de la variabilité du transcriptome humain observée est due au
splicing alternatif, incluant l'utilisation alternative d'exon, la rétention d'intron et l'usage de sites cryptiques de
splicing. Nous présentons une analyse à grande échelle de l'utilisation alternative d'exon dans le transcriptome humain, par le biais de la cartographie génomique d'étiquettes d'ADNc conventionnelles ou de phases ouvertes de lectures (ORESTES). Il est montré que les étiquettes ORESTES représentent plus efficacement les ARN messagers de faible abondance. De plus, la plupart des variants détectés à l'aide des étiquettes ORESTES affectent la structure des protéines correspondantes.
Pour citer cet article : N.J. Sakabe et al., C. R. Biologies 326 (2003).</abstract><cop>France</cop><pub>Elsevier SAS</pub><pmid>14744104</pmid><doi>10.1016/j.crvi.2003.09.027</doi><tpages>7</tpages></addata></record> |
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| source | MEDLINE; Elsevier ScienceDirect Journals Complete; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals |
| subjects | alternative exon usage Alternative Splicing bioinformatics bioinformatique cartographie génomique Exons - genetics genome mapping Genome, Human human transcriptome Humans Open Reading Frames - genetics ORESTES splicing alternatif Transcription, Genetic transcriptome humain utilisation alternative d'exon étiquettes ORESTES |
| title | ORESTES are enriched in rare exon usage variants affecting the encoded proteins |
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