Difference between revisions of "MSigDB v4.0 Release Notes"
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<a href="http://www.broadinstitute.org/gsea/">GSEA Home</a> | <a href="http://www.broadinstitute.org/gsea/downloads.jsp">Downloads</a> | <a href="http://www.broadinstitute.org/gsea/msigdb/">Molecular Signatures Database</a> | <a href="http://www.broadinstitute.org/cancer/software/gsea/wiki/index.php/Main_Page">Documentation</a> | <a href="http://www.broadinstitute.org/gsea/contact.jsp">Contact</a> <br /> | <a href="http://www.broadinstitute.org/gsea/">GSEA Home</a> | <a href="http://www.broadinstitute.org/gsea/downloads.jsp">Downloads</a> | <a href="http://www.broadinstitute.org/gsea/msigdb/">Molecular Signatures Database</a> | <a href="http://www.broadinstitute.org/cancer/software/gsea/wiki/index.php/Main_Page">Documentation</a> | <a href="http://www.broadinstitute.org/gsea/contact.jsp">Contact</a> <br /> | ||
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| − | <h2>New collection C7: | + | |
| + | <h2>New collection C7: Immunologic Signatures</h2> | ||
| + | <p><strong>C7: Immunologic Signatures (ImmuneSig)</strong> is a <strong>new collection</strong> of 1910 sets. These gene sets represent cell types, states, and perturbations within the immune system. The signatures were generated by manual curation of published studies in human and mouse immunology.</p> | ||
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| + | <p>We first captured relevant microarray datasets published in the immunology literature that have raw data deposited to <strong>[http://www.ncbi.nlm.nih.gov/geo Gene Expression Omnibus (GEO)]</strong>. Next, for each published study, the relevant comparisons were identified (e.g. WT vs. KO; pre- vs. post-treatment etc.) and brief, biologically meaningful descriptions were created. Then we processed and normalized every data set the same way to identify gene sets, which correspond to the top or bottom genes (FDR < 0.25 or maximum of 200 genes) ranked by mutual information for each assigned comparison.</p> | ||
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| + | <p>This resource was generated as part of the <strong>[http://www.immuneprofiling.org Human Immunology Project Consortium (HIPC)] </strong>.</p> | ||
<h2>Updates to C2 collection</h2> | <h2>Updates to C2 collection</h2> | ||
| + | <p></p> | ||
| + | <p></p> | ||
<h2> Viewing previous versions of MSigDB</h2> | <h2> Viewing previous versions of MSigDB</h2> | ||
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<p>Files from previous versions of MSigDB (v3.1, v3.0, v2.5, v2.1 and v1.0) are archived and available at [http://www.broadinstitute.org/gsea/downloads.jsp Downloads] page. You can view them through the MSigDB Browser tool in the GSEA desktop application.</p> | <p>Files from previous versions of MSigDB (v3.1, v3.0, v2.5, v2.1 and v1.0) are archived and available at [http://www.broadinstitute.org/gsea/downloads.jsp Downloads] page. You can view them through the MSigDB Browser tool in the GSEA desktop application.</p> | ||
Revision as of 12:02, 5 June 2013
<a href="http://www.broadinstitute.org/gsea/">GSEA Home</a> | <a href="http://www.broadinstitute.org/gsea/downloads.jsp">Downloads</a> | <a href="http://www.broadinstitute.org/gsea/msigdb/">Molecular Signatures Database</a> | <a href="http://www.broadinstitute.org/cancer/software/gsea/wiki/index.php/Main_Page">Documentation</a> | <a href="http://www.broadinstitute.org/gsea/contact.jsp">Contact</a>
New collection C7: Immunologic Signatures
C7: Immunologic Signatures (ImmuneSig) is a new collection of 1910 sets. These gene sets represent cell types, states, and perturbations within the immune system. The signatures were generated by manual curation of published studies in human and mouse immunology.
We first captured relevant microarray datasets published in the immunology literature that have raw data deposited to Gene Expression Omnibus (GEO). Next, for each published study, the relevant comparisons were identified (e.g. WT vs. KO; pre- vs. post-treatment etc.) and brief, biologically meaningful descriptions were created. Then we processed and normalized every data set the same way to identify gene sets, which correspond to the top or bottom genes (FDR < 0.25 or maximum of 200 genes) ranked by mutual information for each assigned comparison.
This resource was generated as part of the Human Immunology Project Consortium (HIPC) .
Updates to C2 collection
Viewing previous versions of MSigDB
Files from previous versions of MSigDB (v3.1, v3.0, v2.5, v2.1 and v1.0) are archived and available at Downloads page. You can view them through the MSigDB Browser tool in the GSEA desktop application.
