https://wiki.biouml.org/index.php?action=history&feed=atom&title=Gene_set_enrichment_analysis_HumanPSD_%28Illumina_probes%29_%28workflow%29 2026-04-13T14:26:15Z Revision history for this page on the wiki MediaWiki 1.20.3 https://wiki.biouml.org/index.php?title=Gene_set_enrichment_analysis_HumanPSD_(Illumina_probes)_(workflow)&diff=7886&oldid=prev 2019-03-12T09:34:57Z

<p>Protected &quot;<a href="/index.php/Gene_set_enrichment_analysis_HumanPSD_(Illumina_probes)_(workflow)" title="Gene set enrichment analysis HumanPSD (Illumina probes) (workflow)">Gene set enrichment analysis HumanPSD (Illumina probes) (workflow)</a>&quot;: Autogenerated page (‎[edit=sysop] (indefinite))</p> <table class='diff diff-contentalign-left'> <tr style='vertical-align: top;'> <td colspan='1' style="background-color: white; color:black;">← Older revision</td> <td colspan='1' style="background-color: white; color:black;">Revision as of 09:34, 12 March 2019</td> </tr></table>

WikiBot https://wiki.biouml.org/index.php?title=Gene_set_enrichment_analysis_HumanPSD_(Illumina_probes)_(workflow)&diff=7882&oldid=prev 2019-03-12T09:34:55Z

<p>Automatic synchronization with BioUML</p> <p><b>New page</b></p><div>;Workflow title<br /> :Gene set enrichment analysis HumanPSD (Illumina probes)<br /> ;Provider<br /> :[[geneXplain GmbH]]<br /> == Workflow overview ==<br /> [[File:Gene-set-enrichment-analysis-HumanPSD-Illumina-probes-workflow-overview.png|400px]]<br /> == Description ==<br /> This workflow is designed to perform Gene Set Enrichment Analysis, GSEA, as it is described at [http://www.broadinstitute.org/gsea/index.jsp http://www.broadinstitute.org/gsea/index.jsp]. As input, the normalized data with Affymetrix probeset IDs can be submitted.<br /> <br /> Such normalized files are resulting from the “Normalize data” procedure under “analyses/Methods/Data normalization/Normalize Affymetrix experiment and control”.<br /> <br /> First, the input files are subjected to fold-change calculation.<br /> <br /> The table with probeset Ids and calculated fold change values is converted into a table with Ensembl Gene Ids.<br /> <br /> At the next step, the Ensembl genes are annotated with additional information, gene description and gene symbols.<br /> <br /> Finally the annotated Ensembl genes are subjected to GSEA. Enrichment analysis is done in parallel by the following ontologies: GO biological processes, GO cellular components, GO molecular functions and by the Reactome pathways.<br /> <br /> For each ontological term several parameters are calculated, including nominal p-value, ES, NES, as well as hit names, the link to the corresponding ontological term, and the link to open a visualization plot.<br /> <br /> == Parameters ==<br /> ;Experiment normalized<br /> ;Control normalized<br /> ;Annotation source<br /> ;Species<br /> ;Results folder<br /> <br /> [[Category:Workflows]]<br /> [[Category:GeneXplain workflows]]<br /> [[Category:Autogenerated pages]]</div>

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