112 lines
7 KiB
HTML
112 lines
7 KiB
HTML
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<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
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<head>
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<title>GEO and MIAME - GEO - NCBI</title>
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<meta name="description" content="Gene Expression Omnibus (GEO) is a database repository of high throughput gene expression data and hybridization arrays, chips, microarrays." />
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<body id="info" class="MIAME">
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<ul id="geo_nav_bar">
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<li><a href="#">GEO Publications</a>
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<ul class="sublist">
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<li><a href="/geo/info/GEOHandoutFinal.pdf">Handout</a></li>
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<li><a href="/pmc/articles/PMC10767856/">NAR 2024 (latest)</a></li>
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<li><a href="/pmc/articles/PMC99122/">NAR 2002 (original)</a></li>
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<li><a href="/pmc/?term=10767856,4944384,3531084,3341798,3013736,2686538,2270403,1669752,1619900,1619899,539976,99122">All publications</a></li>
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<li><a href="/geo/info/faq.html">FAQ</a></li>
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<li><a href="/geo/info/MIAME.html" title="Minimum Information About a Microarray Experiment">MIAME</a></li>
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<li><a href="mailto:geo@ncbi.nlm.nih.gov">Email GEO</a></li>
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<a title="GEO documentation guide" href="/geo/info/">Info</a> »
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<span>GEO and MIAME</span><span id="login_status"><a href="/geo/submitter/" title="Click here to login. You need to do this only if you want to edit the contact information, submit data, see your unreleased data, or work with data already submitted by you. You do not need to login if you are here just to browse through public holdings">Login</a></span></div>
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<div id="content">
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<h1 title="GEO and MIAME">MIAME and MINSEQE guidelines</h1>
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<p>
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The <a href="/pubmed/11726920">MIAME</a> (Minimum Information About a Microarray Experiment)
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and <a href="https://www.fged.org/projects/minseqe/">MINSEQE</a> (Minimum Information About a
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Next-generation Sequencing Experiment) guidelines outline the minimum information that
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should be included when describing a microarray or sequencing study. Many journals
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and funding agencies require microarray data to comply with MIAME and MINSEQE standards.
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</p>
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<div class="alert">
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MIAME compliance is not related to the submission format or route, but rather to the content provided
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</div>
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<p>
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GEO deposit procedures enable and encourage submitters to supply MIAME and MINSEQE compliant data.
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All GEO submission procedures are designed to closely follow the MIAME and MINSEQE checklists;
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if you provide all requested information, your submission will be compliant.
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</p>
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<p>
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The six most critical elements contributing towards MIAME are:
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</p>
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<div class="geo_info_list">
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<ul>
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<li><span class="list_text">Raw data for each assay (e.g., CEL or FASTQ files)</span></li>
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<li><span class="list_text">Final processed (normalized) data for the set of assays in the study
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(e.g., the gene expression data count matrix used to draw the conclusions in the study)</span></li>
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<li><span class="list_text">Essential sample annotation (e.g., tissue, sex and age) and the
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experimental factors and their values (e.g., compound and dose in a dose response study)</span></li>
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<li><span class="list_text">Experimental design including sample data relationships
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(e.g., which raw data file relates to which sample, which assays are technical, which are biological replicates)</span></li>
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<li><span class="list_text">Sufficient annotation of the array or sequence features examines
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(e.g., gene identifiers, genomic coordinates)</span></li>
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<li><span class="list_text">Essential laboratory and data processing protocols
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(e.g., what normalization method has been used to obtain the final processed data)</span></li>
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</ul>
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</div>
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<p>
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More information and background regarding GEO and data standards are discussed in this
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<a href="/pmc/articles/PMC2270403/pdf/nihms41580.pdf">Nature Biotechnology correspondence</a>.
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</p>
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</div>
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</div>
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<div id="last_mod">
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Last modified: July 16, 2024</div>
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<span class="helpbar">|<a href="https://www.nlm.nih.gov"> NLM </a>|<a href="https://www.nih.gov"> NIH </a>|<a href="mailto:geo@ncbi.nlm.nih.gov"> Email GEO </a>|<a href="/geo/info/disclaimer.html"> Disclaimer </a>|<a href="https://www.nlm.nih.gov/accessibility.html"> Accessibility </a>|<a href="https://www.hhs.gov/vulnerability-disclosure-policy/index.html"> HHS Vulnerability Disclosure </a>|
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