{"id":498,"date":"2026-05-05T11:27:14","date_gmt":"2026-05-05T18:27:14","guid":{"rendered":"https:\/\/labs.wsu.edu\/duttke\/?page_id=498"},"modified":"2026-05-06T08:09:04","modified_gmt":"2026-05-06T15:09:04","slug":"wsu-csrna-seq-and-nascent-transcriptomics-services","status":"publish","type":"page","link":"https:\/\/labs.wsu.edu\/duttke\/wsu-csrna-seq-and-nascent-transcriptomics-services\/","title":{"rendered":"WSU csRNA-seq and Nascent Transcriptomics Services"},"content":{"rendered":"\n<h2 class=\"wp-block-heading\">Welcome!<\/h2>\n\n\n\n<p>We provide capped small RNA sequencing (csRNA-seq) as a non-profit service to the research community. Our goal is to make high-resolution nascent transcriptomics widely accessible to labs that lack in-house expertise \u2014 enabling precise measurement of active transcription directly from total RNA, without the need for nuclear run-on assays or specialized cell treatments. We are also happy to train you! csRNA-seq was developed in the Duttke Lab at WSU. A full methods description is available in <a href=\"https:\/\/www.nature.com\/articles\/s41596-025-01285-y\">Meyer et al. Nature Protocols (2026)<\/a><\/p>\n\n\n<div class=\"wsu-row wsu-row--sidebar-right\" >\r\n    \n<div class=\"wsu-column\"  style=\"\">\r\n\t\n\n<h2 class=\"wp-block-heading\">Why csRNA-seq?<\/h2>\n\n\n\n<ul>\n<li>Captures active RNA Polymerase II initiation from total RNA, providing high-resolution maps of transcription start sites (TSSs) and initiation levels for both stable RNAs (mRNAs, non-coding RNAs) and transient RNAs (enhancer RNAs, promoter-antisense RNAs, pri-miRNAs).<\/li>\n\n\n\n<li>Compatible with fresh, frozen, and chemically fixed samples \u2014 including inactivated infectious material \u2014 making it broadly applicable across experimental systems.<\/li>\n\n\n\n<li>Simple and scalable: no nuclear isolation or metabolic labeling required. Works directly from total RNA.<\/li>\n\n\n\n<li>Quantitative and strand-specific, enabling direct comparison of transcriptional activity across conditions, time points, or cell types.<\/li>\n\n\n\n<li>Complements GRO-seq\/PRO-seq and ATAC-seq by pinpointing precise initiation events rather than elongation or chromatin accessibility.<\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading\">How it works<\/h2>\n\n\n\n<p>A typical project follows five steps:<\/p>\n\n\n\n<ol type=\"1\">\n<li>Free consultation \u2014 discuss your experimental design and sample types.<\/li>\n\n\n\n<li><a href=\"https:\/\/labs.wsu.edu\/duttke\/wsu-csrna-seq-and-nascent-transcriptomics-services\/sample-submission\/\">Sample submission<\/a> \u2014 you ship RNA (or nuclei) meeting our quality guidelines.<\/li>\n\n\n\n<li>Library preparation \u2014 performed exclusively by Duttke Lab- trained personnel.<\/li>\n\n\n\n<li>Sequencing \u2014 carried out by our partner core, the WSU Laboratory for Biotechnology and Bioanalysis (LBB).<\/li>\n\n\n\n<li>Data delivery \u2014 raw FASTQ files and processed outputs (aligned reads, TSS tracks, count matrices) provided via secure download link.<\/li>\n<\/ol>\n\n\n\n<p class=\" wsu-font-size--medium\"><em>Typical turnaround from sample receipt to data delivery: 4\u20138 weeks, depending on sequencing queue and project complexity.<\/em><\/p>\n\n<\/div>\r\n\n\n<div class=\"wsu-column\"  style=\"\">\r\n\t\n<div \n\tclass=\"wsu-people-list wsu-spacing-after--none\"\n\tdata-component-id=\"50046dc6ca5746e5a83d27b3d8714f3e\"\n\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-className=\"wsu-spacing-after--none\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-count=\"1\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-page=\"1\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-nid=\"sascha.duttke\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-classification=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-university-category=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-university-location=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-university-organization=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-tag=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-profile-order=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-display-fields=\"name,title,office,email,organization\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-focus-area-label=\"Focus Area\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-website-link-text=\"Website\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-profile-link=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-headingTag=\"h2\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-columns=\"1\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-photo-size=\"medium\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-photo-srcset=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-filters=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-only-show-selected-term-values=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-exclude-term-values=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-include-term-values=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-directory-filter-label=\"Filter by Area\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-directory-filter-terms=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-category-filter-label=\"Filter by Category\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-category-filter-terms=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-classification-filter-label=\"Filter by Classification\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-classification-filter-terms=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-location-filter-label=\"Filter by Location\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-location-filter-terms=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-organization-filter-label=\"Filter by Organization\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-organization-filter-terms=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-search-filter-label=\"Type to search\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-tag-filter-label=\"Filter by Tag\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-tag-filter-terms=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-directory=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-exclude-child-directories=\"1\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-show-profile=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-indexProfiles=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-use-custom-profile-link=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-use-organization=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-custom-profile-link=\"\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-base-url=\"https:\/\/people.wsu.edu\"\n\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\tdata-children=\"\"\n\t\t><\/div>\n\n\n<section  class=\"wsu-section wsu-spacing-top--small wsu-spacing-bottom--small wsu-spacing-after--medium\"  >\r\n        \n\n<h2 class=\"wp-block-heading\">Contact us<\/h2>\n\n\n\n<p>All service requests begin with a free consultation. Please reach out before submitting samples \u2014 this helps us ensure your project is a good fit and that your samples are prepared optimally.<\/p>\n\n\n\n<h3 class=\"wp-block-heading\">Let&#8217;s get started<\/h3>\n\n\n\n<p>Email us with a brief description of your project, including<\/p>\n\n\n\n<ul>\n<li>organism\/tissue<\/li>\n\n\n\n<li>sample type (fresh\/frozen\/fixed\/purified RNA)<\/li>\n\n\n\n<li>number of samples, and<\/li>\n\n\n\n<li>your research question.<\/li>\n<\/ul>\n\n\n\n<p>We will respond within 2\u20133 business days.<\/p>\n\n    <\/section>\n\n\n<p>More info about csRNA-seq <a href=\"https:\/\/labs.wsu.edu\/duttke\/protocols\/\">on our Protocols page<\/a>.<\/p>\n\n<\/div>\r\n\n<\/div>\n\n\n<h2 class=\"wp-block-heading\">What you receive<\/h2>\n\n\n\n<ul>\n<li>Raw sequencing reads (FASTQ)<\/li>\n\n\n\n<li>Upon request: A draft Methods paragraph describing the library preparation and analysis pipeline, suitable for inclusion in a manuscript<\/li>\n<\/ul>\n\n\n\n<p class=\" wsu-font-size--medium\"><em>Extended bioinformatic support (differential TSS analysis, integration with other datasets) is available as an optional add-on. Discuss this during your consultation.<\/em><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Welcome! We provide capped small RNA sequencing (csRNA-seq) as a non-profit service to the research community. Our goal is to make high-resolution nascent transcriptomics widely accessible to labs that lack in-house expertise \u2014 enabling precise measurement of active transcription directly from total RNA, without the need for nuclear run-on assays or specialized cell treatments. We [&hellip;]<\/p>\n","protected":false},"author":1351,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":[],"categories":[],"tags":[],"wsuwp_university_location":[],"wsuwp_university_org":[],"_links":{"self":[{"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/pages\/498"}],"collection":[{"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/users\/1351"}],"replies":[{"embeddable":true,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/comments?post=498"}],"version-history":[{"count":2,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/pages\/498\/revisions"}],"predecessor-version":[{"id":523,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/pages\/498\/revisions\/523"}],"wp:attachment":[{"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/media?parent=498"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/categories?post=498"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/tags?post=498"},{"taxonomy":"wsuwp_university_location","embeddable":true,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/wsuwp_university_location?post=498"},{"taxonomy":"wsuwp_university_org","embeddable":true,"href":"https:\/\/labs.wsu.edu\/duttke\/wp-json\/wp\/v2\/wsuwp_university_org?post=498"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}