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== Computational analysis ==
== Computational analysis ==
* [[Protocols:CAGE_peak_calling]]
* [[Protocols:CAGE_peak_calling]]
* [[Protocols:GOstat_on_coexpression_cluster]]
The Gene Ontology enrichment analysis for the following data sets
* [[Protocols:GOstat_on_MARA_motif_target]]
* GOstat_on_coexpression_cluster
* GOstat_on_MARA_motif_target
was performed using GOstat (PMID:14962934) on gene lists with all known genes (human or mouse) as background. Terms significant at FDR 5% (Benjamin-Hochberg) were retained.
* [[Protocols:Sample_enrichment_analysis_on_CAGE_peak_expression]]
* [[Protocols:Sample_enrichment_analysis_on_CAGE_peak_expression]]
* [[Protocols:Sample_enrichment_analysis_on_coexpression_cluster]]
* [[Protocols:Sample_enrichment_analysis_on_coexpression_cluster]]
* [[Protocols:Motif_Activity_Response_Analysis(MARA)]]
* [[Protocols:Motif_Activity_Response_Analysis(MARA)]]

Latest revision as of 13:55, 3 September 2012

Assay pipeline

Computational Pipeline

Computational analysis

The Gene Ontology enrichment analysis for the following data sets

  • GOstat_on_coexpression_cluster
  • GOstat_on_MARA_motif_target

was performed using GOstat (PMID:14962934) on gene lists with all known genes (human or mouse) as background. Terms significant at FDR 5% (Benjamin-Hochberg) were retained.