280 lines
18 KiB
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280 lines
18 KiB
XML
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<meta xmlns:ncbi-portal="http://ncbi.gov/portal/XSLT/namespace" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" name="ncbi_app" content="sra" /><meta xmlns:ncbi-portal="http://ncbi.gov/portal/XSLT/namespace" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" name="ncbi_pdid" content="sra-custom-page" />
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<title>SRA Submission Quick Start</title>
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<link rel="shortcut icon" href="//www.ncbi.nlm.nih.gov/favicon.ico" /><meta name="ncbi_phid" content="CE8C99B67C8123D100000000014A0109.m_6" />
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<meta name='referrer' content='origin-when-cross-origin'/><link type="text/css" rel="stylesheet" href="//static.pubmed.gov/portal/portal3rc.fcgi/4217302/css/4121862/3974050/3917732/251717/4082496/14534/45193/3534283/4128070/4082512/4005757/4062871.css" /><link type="text/css" rel="stylesheet" href="//static.pubmed.gov/portal/portal3rc.fcgi/4217302/css/3529741/3529739.css" media="print" /></head>
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<body class=" sra-custom-page">
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<div class="grid">
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<div class="col twelve_col nomargin shadow">
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<!-- System messages like service outage or JS required; this is handled by the TemplateResources portlet -->
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<noscript>
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<p class="nojs">
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<strong>Warning:</strong>
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The NCBI web site requires JavaScript to function.
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<a href="/guide/browsers/#enablejs" title="Learn how to enable JavaScript" target="_blank">more...</a>
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</div>
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<div class="wrap">
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<div xmlns:xi="http://www.w3.org/2001/XInclude">
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<xi:include href="http://127.0.0.1/sites/static/header_footer" xpointer="xmlns(x=http://www.w3.org/1999/xhtml) xpointer(//x:div[@id='universal_header'])"></xi:include>
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</div>
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<!--/.header-->
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<div class="header">
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<div class="res_logo"><h1 class="res_name"><a href="/sra/" title="SRA home">SRA</a></h1><h2 class="res_tagline">SRA</h2></div>
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<div class="search"><form method="get" action="/sra/"><div class="search_form"><label for="database" class="offscreen_noflow">Search database</label><select id="database"><optgroup label="Recent"><option value="sra" selected="selected">SRA</option><option value="nuccore">Nucleotide</option><option value="books">Books</option><option value="omim" class="last">OMIM</option></optgroup><optgroup label="All"><option value="gquery">All Databases</option><option value="assembly">Assembly</option><option value="biocollections">Biocollections</option><option value="bioproject">BioProject</option><option value="biosample">BioSample</option><option value="books">Books</option><option value="clinvar">ClinVar</option><option value="cdd">Conserved Domains</option><option value="gap">dbGaP</option><option value="dbvar">dbVar</option><option value="gene">Gene</option><option value="genome">Genome</option><option value="gds">GEO DataSets</option><option value="geoprofiles">GEO Profiles</option><option value="gtr">GTR</option><option value="ipg">Identical Protein Groups</option><option value="medgen">MedGen</option><option value="mesh">MeSH</option><option value="nlmcatalog">NLM Catalog</option><option value="nuccore">Nucleotide</option><option value="omim">OMIM</option><option value="pmc">PMC</option><option value="protein">Protein</option><option value="proteinclusters">Protein Clusters</option><option value="protfam">Protein Family Models</option><option value="pcassay">PubChem BioAssay</option><option value="pccompound">PubChem Compound</option><option value="pcsubstance">PubChem Substance</option><option value="pubmed">PubMed</option><option value="snp">SNP</option><option value="sra">SRA</option><option value="structure">Structure</option><option value="taxonomy">Taxonomy</option><option value="toolkit">ToolKit</option><option value="toolkitall">ToolKitAll</option><option value="toolkitbookgh">ToolKitBookgh</option></optgroup></select><div class="nowrap"><label for="term" class="offscreen_noflow" accesskey="/">Search term</label><div class="nowrap"><input type="text" name="term" id="term" title="Search SRA" value="" class="jig-ncbiclearbutton jig-ncbiautocomplete" data-jigconfig="isEnabled:false,disableUrl:'NcbiSearchBarAutoComplCtrl'" autocomplete="off" data-sbconfig="ds:'no',pjs:'no',afs:'yes'" /></div><button id="search" type="submit" class="button_search nowrap" cmd="go">Search</button></div></div></form><ul class=" inline_list searchlinks"><li>
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<a href="/sra/advanced/">Advanced</a>
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</li></ul></div>
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</div>
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<div class="nav_and_browser">
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<div class="localnav"><ul class="jig-ncbilocalnav">
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<li>
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<a title="Getting Started" href="/sra/docs/">Getting Started</a></li>
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<li>
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<a title="SRA Submission Quick Start" href="/sra/docs/submit">Submission Quick Start</a></li>
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<li>
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<a title="SRA Search and Download Guide" href="/sra/docs/sradownload">Search and Download</a>
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</li>
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<li>
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<a title="How to use SRA in the cloud" href="/sra/docs/sra-cloud">SRA in the Cloud</a>
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</li>
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<li>
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<a title="Archive Documentation" href="/sra/docs/sra-data-storage-model/">Archive Documentation</a>
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<ul>
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<li><a title="Data Storage Model" href="/sra/docs/sra-data-storage-model/">Data Storage Model</a></li>
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<li><a title="Root Cause Analysis: Summary and Report" href="/sra/docs/rca/">Root Cause Analysis: Summary and Report</a></li>
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</ul>
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</li>
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</ul></div>
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</div>
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<div class="container">
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<div id="maincontent" class="content col twelve_col last">
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<div class="col1">
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<h1 id="sra-submission-quick-start">SRA Submission Quick Start</h1>
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<div class="jig-ncbiinpagenav" data-all-heading-levels="["h2"]" data-top-of-page-t-o-c="true">
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<h2 id="accepted-data">Accepted data</h2>
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<p>📌 The SRA accepts <span class="bold">genetic data and the associated quality
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scores</span> produced by next generation sequencing technologies. Please refer to the <a target="_blank" title="File format guide" href="/sra/docs/submitformats">File Format Guide</a> for more specific information.</p>
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<div class="warning-message"><img src="/core/assets/sra/images/znak.png" alt="Exclamation point" height="20" />
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Majority of SRA submissions are submitted via SRA Submission Portal Wizard.
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However, certain types of SRA data must be submitted via dbGaP or GEO databases.</div>
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<p>Please refer to </p>
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<ul>
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<li><a target="_blank" title="Submit for dbGaP project" href="/sra/docs/submitdbgap">dbGaP Submission Guide</a> - submit human data that require controlled access </li>
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<li><a target="_blank" title="Submit for GEO project" href="/sra/docs/submitgeo">GEO Submission Guide</a> - submit functional genomic studies</li>
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</ul>
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<h2 id="submitting-via-sra-submission-po">Submitting via SRA Submission Portal Wizard</h2>
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<p>Please see our 'How to Submit' video tutorial and step-by-step instructions on submitting in the SRA Submission Portal Wizard here:<br />
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<a title="Submitting data in SRA Submission Portal Wizard" href="/sra/docs/submitportal">Submitting data in SRA Submission Portal Wizard</a> </p>
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<p>Help links: </p>
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<p><table>
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<tbody>
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<tr>
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<th>Task</th>
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<th>Description</th>
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<th>Help link</th>
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</tr>
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<tr>
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<td><span class="bold">Submitting</span> </td>
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<td>Step-by-step instructions for submitting in the SRA Submission Wizard</td>
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<td>
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<a target="_blank" title="How to make SRA Submission in Submission Portal, new window" href="/sra/docs/submitportal">Submitting to SRA</a>
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</td>
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</tr>
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<tr>
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<td>
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<span class="bold">Troubleshooting</span>
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</td>
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<td>Troubleshooting errors and warnings during SRA submission</td>
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<td>
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<a target="_blank" title="How to pre-upload data files in Submission Portal, new window" href="/sra/docs/submitspfiles">Troubleshooting SRA submission</a>
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</td>
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</tr>
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<tr>
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<td>
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<span class="bold">Updating</span>
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</td>
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<td>Updating metadata, changing release date, etc.</td>
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<td>
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<a target="_blank" title="The SRA updates, new window" href="/sra/docs/submitupdate">Updating SRA data</a>
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</td>
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</tr>
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</tbody>
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</table></p>
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<h2 id="human-data">Human data</h2>
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<p>Before depositing human data into the public SRA database make sure that you have consent from the donating individual to make this data available in an unprotected database. Do not transmit unconsented human data intended for dbGaP submissions to the public SRA database. Please refer to our <a target="_blank" title="Submit for dbGaP project" href="/sra/docs/submitdbgap">dbGaP submission Guide</a>.</p>
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<h2 id="metagenomic-data">Metagenomic data</h2>
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<p>Human metagenomic studies may contain human sequences and require that the donor provide consent to archive their data in an unprotected database. If you would like to archive human metagenomic sequences in the public SRA database please contact the SRA and we will screen and remove human sequence contaminants from your submission.</p>
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<h2 id="submission-portal-sp-vs-sequence">Submission Portal (SP) vs. Sequence Read Archive (SRA)</h2>
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<p><strong>The Submission Portal</strong> provides convenient web wizards for data submission to the SRA as well
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as to other NCBI databases and an interface <a target="_blank" title="Data View interface" href="https://dataview.ncbi.nlm.nih.gov">for reviewing and editing some of the metadata</a>.
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After initial data validation, SP facilitates deposition of the data into target databases, such as the SRA.
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Submission Portal Home page: <a target="_blank" title="Submission Portal Home page" href="https://submit.ncbi.nlm.nih.gov/">https://submit.ncbi.nlm.nih.gov/</a>.</p>
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<p><strong>The SRA database</strong> (and other NCBI databases) receives the data, performs additional validation and may return error messages
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reflected in SP's interface. After that, the databases store the data that are accessible by various tools.
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For the SRA, please refer to the <a title="SRA Download guide" href="/sra/docs/sradownload/">Download guide</a>.</p>
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<hr />
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<h2 id="contact-sra-staff">Contact SRA staff</h2>
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<p>Before contacting SRA staff for assistance please visit
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our <a target="_blank" title="Troubleshooting SRA submission in Submission Portal" href="/sra/docs/submitspfiles">SRA Submission Portal Troubleshooting Guide</a>. </p>
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<p><img src="/core/assets/sra/images/znak.png" alt="Exclamation point" height="20" /> Please provide your submission's temporary ID in the form of
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<span class="bold">SUB#</span> in your messages. </p>
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<p>Email <a href="mailto:sra@ncbi.nlm.nih.gov">sra@ncbi.nlm.nih.gov</a> for help. </p>
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</div>
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</div>
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<!--/.col1-->
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<div class="col2">
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<div id="shared-content-1">
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<h2 data-heading="h2" data-no-toc="true">Getting Started</h2>
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<ul>
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<li><a title="SRA Getting Started" href="/sra/docs/">Getting Started</a></li>
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</ul>
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<h2 data-heading="h2" data-no-toc="true">Submitting Data to SRA</h2>
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<h3 class="nav" data-heading="h3" data-no-toc="true">General</h3>
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<ul>
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<li><a title="SRA Submission Quick Start" href="/sra/docs/submit">Quick Start</a></li>
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<li><a title="How to submit BioProject and BioSample for SRA" href="/sra/docs/submitbio">BioProject & BioSample</a></li>
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<li><a title="SRA file format guide" href="/sra/docs/submitformats">File Format Guide</a></li>
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<li><a title="Understanding SRA Metadata and Submission Overview" href="/sra/docs/submitmeta">SRA Metadata Overview</a></li>
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<li><a title="SRA File Upload" href="/sra/docs/submitfiles">SRA File Upload</a></li>
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<li><a title="SRA Frequently Asked Questions" href="/sra/docs/submitquestions">Frequently Asked Questions</a></li>
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</ul>
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<h3 class="nav" data-heading="h3" data-no-toc="true">SRA Submission Portal</h3>
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<ul>
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<li><a title="Submitting Data in Submission Portal" href="/sra/docs/submitportal">Submitting to SRA</a></li>
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<li><a title="Troubleshooting SRA submission" href="/sra/docs/submitspfiles">Troubleshooting Submission</a></li>
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</ul>
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<h3 class="nav" data-heading="h3" data-no-toc="true">Submitting for dbGaP & GEO</h3>
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<ul>
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<li><a title="Submitting SRA data for dbGaP project" href="/sra/docs/submitdbgap">Submitting for dbGaP</a></li>
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<li><a title="Submitting SRA data for GEO" href="/sra/docs/submitgeo">Submitting for GEO</a></li>
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</ul>
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<h3 class="nav" data-heading="h3" data-no-toc="true">Updating SRA Data</h3>
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<ul>
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<li><a title="Updating SRA submission" href="/sra/docs/submitupdate">Updating SRA data</a> </li>
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<li><a title="Request status change" href="/sra/docs/request-status-change">Request status change</a> </li>
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<li><a title="Change release date" href="/sra/docs/submitsra">Change Release Date</a></li>
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</ul>
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</div>
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<p class="last-updated small">Last updated: 2023-07-20T20:28:08Z</p>
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