{"id":425,"date":"2022-02-04T17:23:03","date_gmt":"2022-02-04T16:23:03","guid":{"rendered":"https:\/\/pgtb.fr\/?page_id=425"},"modified":"2026-01-06T17:20:27","modified_gmt":"2026-01-06T16:20:27","slug":"rna-seq","status":"publish","type":"page","link":"https:\/\/pgtb.fr\/en\/rna-seq\/","title":{"rendered":"Transcriptomics"},"content":{"rendered":"<p class=\"wp-block-paragraph\">La transcriptomique consiste \u00e0 s\u00e9quencer tout ou partie des ARN transcrits (ARNm, miRNA, ARN non-codants etc&#8230;) dans le g\u00e9nome \u00e0 un moment donn\u00e9 et dans des conditions donn\u00e9es. Cette technique utilise le s\u00e9quen\u00e7age haut d\u00e9bit pour identifier et quantifier le transcriptome. Ces analyses permettent d&rsquo;\u00e9tudier l&rsquo;expression de g\u00e8nes, les r\u00e9seaux d&rsquo;expression des g\u00e8nes et les m\u00e9canismes d&rsquo;\u00e9pissage alternatif.<\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n<div class=\"wp-block-image\">\n<figure class=\"aligncenter size-large\"><img data-recalc-dims=\"1\" fetchpriority=\"high\" decoding=\"async\" width=\"750\" height=\"505\" data-attachment-id=\"547\" data-permalink=\"https:\/\/pgtb.fr\/en\/rnaseqoverview2\/\" data-orig-file=\"https:\/\/i0.wp.com\/pgtb.fr\/wp-content\/uploads\/2022\/02\/rnaseqoverview2.png?fit=842%2C567&amp;ssl=1\" data-orig-size=\"842,567\" data-comments-opened=\"1\" data-image-meta=\"{&quot;aperture&quot;:&quot;0&quot;,&quot;credit&quot;:&quot;&quot;,&quot;camera&quot;:&quot;&quot;,&quot;caption&quot;:&quot;&quot;,&quot;created_timestamp&quot;:&quot;0&quot;,&quot;copyright&quot;:&quot;&quot;,&quot;focal_length&quot;:&quot;0&quot;,&quot;iso&quot;:&quot;0&quot;,&quot;shutter_speed&quot;:&quot;0&quot;,&quot;title&quot;:&quot;&quot;,&quot;orientation&quot;:&quot;0&quot;}\" data-image-title=\"rnaseqoverview2\" data-image-description=\"\" data-image-caption=\"\" data-large-file=\"https:\/\/i0.wp.com\/pgtb.fr\/wp-content\/uploads\/2022\/02\/rnaseqoverview2.png?fit=750%2C505&amp;ssl=1\" src=\"https:\/\/i0.wp.com\/pgtb.fr\/wp-content\/uploads\/2022\/02\/rnaseqoverview2.png?resize=750%2C505&#038;ssl=1\" alt=\"\" class=\"wp-image-547\"\/><\/figure>\n<\/div>\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<p class=\"wp-block-paragraph\" style=\"font-size:29px\">Services<\/p>\n\n\n\n<p class=\"has-text-align-justify wp-block-paragraph\">Nombre d&rsquo;\u00e9chantillons \u00e0 d\u00e9finir avec la PGTB, en fonction du s\u00e9quenceur, de la flow cell et du nombre de reads cibl\u00e9s. Il est recommand\u00e9 d&rsquo;ajouter des r\u00e9plicats pour les analyses RNAseq.<\/p>\n\n\n\n<p class=\"has-text-align-justify wp-block-paragraph\">Le s\u00e9quen\u00e7age peut se faire en short read sur NextSeq 2000 d&rsquo;Illumina ou en long read sur P2 Solo d&rsquo;Oxford Nanopore Technologies.<\/p>\n\n\n\n<p class=\"wp-block-paragraph\"><\/p>\n\n\n\n<p class=\"wp-block-paragraph\" style=\"font-size:29px\">Pr\u00e9requis<\/p>\n\n\n\n<p class=\"has-foreground-color has-text-color wp-block-paragraph\">S\u00e9quen\u00e7age Illumina : 1 \u00b5g d&rsquo;ARN total et RIN &gt;7  <\/p>\n\n\n\n<p class=\"wp-block-paragraph\">S\u00e9quen\u00e7age ONT&nbsp;: 3 kits sont propos\u00e9s&nbsp;selon la nature des besoins et des ressources disponibles :<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li> S\u00e9quen\u00e7age des brins natifs d\u2019ARNm pleine longueur (&gt;500 ng d\u2019ARNm)<\/li>\n<\/ul>\n\n\n\n<ul class=\"wp-block-list\">\n<li>S\u00e9quen\u00e7age stranded de cDNA pleine longueur non-amplifi\u00e9s (&gt;100 ng d\u2019ARNm)<\/li>\n<\/ul>\n\n\n\n<ul class=\"wp-block-list\">\n<li>S\u00e9quen\u00e7age stranded de cDNA pleine longueur amplifi\u00e9s (&gt;10 ng d\u2019ARNm)<\/li>\n<\/ul>\n\n\n\n<p class=\"wp-block-paragraph\" style=\"font-size:29px\">R\u00e9sultats<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">Transmis par mail ou d\u00e9pos\u00e9s sur serveur<\/p>\n\n\n\n<p class=\"wp-block-paragraph\">Selon le service demand\u00e9 :<\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li>Fichiers fastq d\u00e9multiplex\u00e9s<\/li>\n\n\n\n<li>Rapport du run de s\u00e9quen\u00e7age (<a href=\"https:\/\/multiqc.info\/\" target=\"_blank\" rel=\"noreferrer noopener\">MultiQC <\/a>pour Illumina, <a href=\"https:\/\/a-slide.github.io\/pycoQC\/\" target=\"_blank\" rel=\"noreferrer noopener\">PycoQC <\/a>pour Oxford Nanopore)<\/li>\n\n\n\n<li>Analyse sur <a href=\"https:\/\/emea.illumina.com\/products\/by-type\/informatics-products\/basespace-sequence-hub\/apps\/edico-genome-inc-dragen-rna-pipeline.html\" target=\"_blank\" rel=\"noreferrer noopener\">DRAGEN RNA pipeline<\/a> pour le s\u00e9quen\u00e7age Illumina<\/li>\n<\/ul>\n\n\n\n<p class=\"wp-block-paragraph\" style=\"font-size:29px\">Publication associ\u00e9e<\/p>\n\n\n\n<p class=\"has-text-align-justify wp-block-paragraph\">Lopes, M., Vincent, A., Thomas, F., Clouard, C., Comte, R., Brien, M., Chambeaud, J., H\u00e9rault, F.,&nbsp;<strong>Guichoux, E., Boury, C<\/strong>., Resmond, R., &amp; Merlot, E., 2024. Data paper: Dataset describing the effects of environmental enrichment and sows\u2019 characteristics on the peripheral blood mononuclear cell transcriptome.&nbsp;<em>Animal \u2013 Open Space<\/em>.<a href=\"https:\/\/doi.org\/10.1016\/j.anopes.2024.100078\">https:\/\/doi.org\/10.1016\/j.anopes.2024.100078<\/a><\/p>","protected":false},"excerpt":{"rendered":"<p>La transcriptomique consiste \u00e0 s\u00e9quencer tout ou partie des ARN transcrits (ARNm, miRNA, ARN non-codants etc&#8230;) dans le g\u00e9nome \u00e0 un moment donn\u00e9 et dans des conditions donn\u00e9es. Cette technique utilise le s\u00e9quen\u00e7age haut d\u00e9bit pour identifier et quantifier le transcriptome. Ces analyses permettent d&rsquo;\u00e9tudier l&rsquo;expression de g\u00e8nes, les r\u00e9seaux d&rsquo;expression des g\u00e8nes et les<a class=\"more-link\" href=\"https:\/\/pgtb.fr\/en\/rna-seq\/\">Continue reading <span class=\"screen-reader-text\">\u00ab\u00a0Transcriptomique\u00a0\u00bb<\/span><\/a><\/p>","protected":false},"author":216247060,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_crdt_document":"","advanced_seo_description":"","jetpack_seo_html_title":"","jetpack_seo_noindex":false,"footnotes":""},"class_list":["post-425","page","type-page","status-publish","hentry","entry"],"jetpack_likes_enabled":true,"jetpack_sharing_enabled":true,"jetpack_shortlink":"https:\/\/wp.me\/PdFmHm-6R","jetpack-related-posts":[],"_links":{"self":[{"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/pages\/425","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/users\/216247060"}],"replies":[{"embeddable":true,"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/comments?post=425"}],"version-history":[{"count":27,"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/pages\/425\/revisions"}],"predecessor-version":[{"id":3724,"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/pages\/425\/revisions\/3724"}],"wp:attachment":[{"href":"https:\/\/pgtb.fr\/en\/wp-json\/wp\/v2\/media?parent=425"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}