Difference between revisions of "MSigDB v5.1 Release Notes"
m |
m |
||
| Line 1: | Line 1: | ||
| − | + | <h2>Updates to C7: Immunologic Signatures</h2> | |
| + | <p> | ||
| + | <strong>2962 new gene sets </strong> derived directly from microarray data of immunological studies. 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> | ||
| + | |||
| + | <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> | ||
| + | |||
| + | <p> The entire <strong> C7 </strong> collection of 4872 immune signatures is also termed <strong>ImmuneSigDB</strong>.</p> | ||
| + | <p> To cite ImmuneSigDB and for additional information about it, please refer to this publication:<br> | ||
| + | [http://www.cell.com/immunity/pdfExtended/S1074-7613(15)00532-4 "Compendium of Immune Signatures Identifies Conserved and Species-Specific Biology in Response to Inflammation"]<br> | ||
| + | Immunity, published online January 12, 2016</p> | ||
| + | |||
| + | <p>This resource was generated as part of the <strong>[http://www.immuneprofiling.org Human Immunology Project Consortium (HIPC)] </strong>.</p> | ||
Revision as of 23:46, 12 January 2016
Updates to C7: Immunologic Signatures
2962 new gene sets derived directly from microarray data of immunological studies. 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.
The entire C7 collection of 4872 immune signatures is also termed ImmuneSigDB.
To cite ImmuneSigDB and for additional information about it, please refer to this publication:
"Compendium of Immune Signatures Identifies Conserved and Species-Specific Biology in Response to Inflammation"
Immunity, published online January 12, 2016
This resource was generated as part of the Human Immunology Project Consortium (HIPC) .
