{"id":10146,"date":"2020-06-29T09:36:52","date_gmt":"2020-06-29T09:36:52","guid":{"rendered":"https:\/\/bgrssb.icgbio.ru\/2020\/2020\/06\/29\/rtrans-a-pipeline-for-multi-way-analysis-of-differential-gene-expression-profiles\/"},"modified":"2020-06-29T09:36:52","modified_gmt":"2020-06-29T09:36:52","slug":"rtrans-a-pipeline-for-multi-way-analysis-of-differential-gene-expression-profiles","status":"publish","type":"post","link":"https:\/\/bgrssb.icgbio.ru\/2020\/2020\/06\/29\/rtrans-a-pipeline-for-multi-way-analysis-of-differential-gene-expression-profiles\/","title":{"rendered":"RTrans: a pipeline for multi-way analysis of differential gene expression profiles"},"content":{"rendered":"<p>Poster (<a href=\"https:\/\/bgrssb.icgbio.ru\/wp-content\/uploads\/2020\/07\/257.pdf\">download<\/a>)<br \/>\n    <br \/><a href=\"https:\/\/bgrssb.icgbio.ru\/wp-content\/uploads\/2020\/07\/257.pdf\" class=\"pdfemb-viewer\" style=\"\" data-width=\"max\" data-height=\"max\"  data-toolbar=\"bottom\" data-toolbar-fixed=\"off\">257<br\/><\/a><br \/>George Sergeevich Krasnov<sup>1<\/sup>, Anastasiya Andreevna Kobelyatskaya<sup>2<\/sup>, Anastasiya Vladimirovna Snezhkina<sup>3<\/sup>, Vladislav Sergeevich Pavlov<sup>4<\/sup>, Elena Anatolevna Pudova<sup>5<\/sup>, Anna Victorovna Kudryavtseva<sup>6<\/sup><br \/><sup>1<\/sup>EIMB RAS, gskrasnov@mail.ru<br \/><sup>2<\/sup>EIMB RAS, kaa.chel@mail.ru<br \/><sup>3<\/sup>EIMB RAS, leftger@rambler.ru<br \/><sup>4<\/sup>EIMB RAS, vladislav1pavlov@gmail.com<br \/><sup>5<\/sup>EIMB RAS, pudova_elena@inbox.ru<br \/><sup>6<\/sup>EIMB RAS, rhizamoeba@mail.ru<\/p>\n<p>RNA-Seq is a widespread technique routinely used to reveal differentially expressed (DE) genes, splicing events and affected signaling pathways. Usually, RNA-Seq data analysis needs skills in programming and bioinformatics. We aimed at developing easy-to-use pipeline covering multiple aspects of DE analysis. Here we present RTrans pipeline aimed at evaluating differential gene expression, pathway enrichment, WGCNA co-expression analysis and visualization. It provides rapid analysis of read counts data including MANOVA, paired tests, non-parametric tests. RTrans represents a versatile pipeline facilitating DE analysis based on RNA-Seq and other quantitative data.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Poster (download) George Sergeevich Krasnov1, Anastasiya Andreevna Kobelyatskaya2, Anastasiya Vladimirovna Snezhkina3, Vladislav Sergeevich Pavlov4, Elena Anatolevna Pudova5, Anna Victorovna Kudryavtseva61EIMB RAS, gskrasnov@mail.ru2EIMB RAS, kaa.chel@mail.ru3EIMB RAS, leftger@rambler.ru4EIMB RAS, vladislav1pavlov@gmail.com5EIMB RAS, pudova_elena@inbox.ru6EIMB RAS, rhizamoeba@mail.ru RNA-Seq is a widespread technique routinely used to reveal differentially expressed (DE) genes, splicing events and affected signaling pathways. Usually, RNA-Seq data analysis needs skills in programming and bioinformatics. We aimed at developing easy-to-use pipeline covering multiple aspects of DE analysis. Here we present RTrans pipeline aimed at evaluating differential gene expression, pathway enrichment, WGCNA co-expression analysis and visualization. It provides rapid analysis of read counts data including MANOVA, paired tests, non-parametric tests. RTrans represents a versatile pipeline facilitating DE analysis based on RNA-Seq and other quantitative data.<\/p>\n","protected":false},"author":9,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":[],"categories":[2171],"tags":[1681,1680,1266],"_links":{"self":[{"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/posts\/10146"}],"collection":[{"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/users\/9"}],"replies":[{"embeddable":true,"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/comments?post=10146"}],"version-history":[{"count":0,"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/posts\/10146\/revisions"}],"wp:attachment":[{"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/media?parent=10146"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/categories?post=10146"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/bgrssb.icgbio.ru\/2020\/wp-json\/wp\/v2\/tags?post=10146"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}