Personal tools

MCL coexpression mm9:3468

From FANTOM5_SSTAR

Revision as of 20:06, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr4:150227878..150227897,+p3@Errfi1
Mm9::chr4:150227904..150227921,+p2@Errfi1
Mm9::chr5:145118861..145118870,-p3@Baiap2l1


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:0046847filopodium formation0.0153361620812703
GO:0030035microspike biogenesis0.0153361620812703
GO:0031098stress-activated protein kinase signaling pathway0.0367684643483352
GO:0030031cell projection biogenesis0.0367684643483352



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><br>


Cell Type
Ontology termp-valuen
epithelial cell1.83e-0825
endodermal cell5.40e-0820
intestinal epithelial cell6.98e-079
epithelial cell of alimentary canal6.98e-079

Uber Anatomy
Ontology termp-valuen
gastrointestinal system2.10e-2247
intestine7.56e-2231
digestive system1.06e-18116
digestive tract1.06e-18116
primitive gut1.06e-18116
endoderm-derived structure1.63e-18118
endoderm1.63e-18118
presumptive endoderm1.63e-18118
subdivision of digestive tract1.96e-17114
mucosa7.62e-1115
digestive tract diverticulum4.42e-1023
sac4.42e-1023
intestinal mucosa1.85e-0913
anatomical wall1.85e-0913
wall of intestine1.85e-0913
gastrointestinal system mucosa1.85e-0913
liver2.09e-0922
epithelial sac2.09e-0922
digestive gland2.09e-0922
epithelium of foregut-midgut junction2.09e-0922
anatomical boundary2.09e-0922
hepatobiliary system2.09e-0922
foregut-midgut junction2.09e-0922
hepatic diverticulum2.09e-0922
liver primordium2.09e-0922
septum transversum2.09e-0922
liver bud2.09e-0922
trunk region element4.45e-0879
exocrine gland2.21e-0725
exocrine system2.21e-0725
epithelium of mucosa6.98e-079
gastrointestinal system epithelium6.98e-079
intestinal epithelium6.98e-079


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}}}