Personal tools

MCL coexpression mm9:807

From FANTOM5_SSTAR

Revision as of 12:47, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr12:4914545..4914560,-p5@Ubxn2a
Mm9::chr13:105400705..105400716,-p@chr13:105400705..105400716
-
Mm9::chr13:43364328..43364338,-p@chr13:43364328..43364338
-
Mm9::chr1:13152564..13152597,-p@chr1:13152564..13152597
-
Mm9::chr2:127159235..127159246,+p@chr2:127159235..127159246
+
Mm9::chr2:34819390..34819406,+p@chr2:34819390..34819406
+
Mm9::chr8:87186907..87186914,-p3@Ier2
Mm9::chr8:87186926..87186970,-p2@Ier2
Mm9::chr9:20780356..20780371,+p@chr9:20780356..20780371
+


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


GO IDGO nameFDR corrected p-value
GO:0030375thyroid hormone receptor coactivator activity0.0149012517811746
GO:0030374ligand-dependent nuclear receptor transcription coactivator activity0.018625033901764
GO:0035257nuclear hormone receptor binding0.0193657897706547
GO:0051427hormone receptor binding0.0193657897706547
GO:0030518steroid hormone receptor signaling pathway0.0193657897706547
GO:0030522intracellular receptor-mediated signaling pathway0.0223420803936546



Relative expression of the co-expression cluster over median <br>Analyst:





Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>


Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}