Personal tools

MCL coexpression mm9:2768

From FANTOM5_SSTAR

Revision as of 19:00, 11 October 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Phase1 CAGE Peaks

 Short description
Mm9::chr12:112404696..112404731,+p3@Traf3
Mm9::chr9:7872814..7872876,-p1@Birc3
Mm9::chrX:34683959..34683976,+p@chrX:34683959..34683976
+


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:0042981regulation of apoptosis0.00691262605285871
GO:0043067regulation of programmed cell death0.00691262605285871
GO:0006915apoptosis0.00691262605285871
GO:0012501programmed cell death0.00691262605285871
GO:0008219cell death0.00691262605285871
GO:0016265death0.00691262605285871
GO:0048468cell development0.01785002838149
GO:0048869cellular developmental process0.0289969427809783
GO:0030154cell differentiation0.0289969427809783
GO:0006916anti-apoptosis0.0289969427809783
GO:0008270zinc ion binding0.0311891338571884
GO:0046914transition metal ion binding0.0400161514098527
GO:0043066negative regulation of apoptosis0.0400161514098527
GO:0043069negative regulation of programmed cell death0.0400161514098527



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>


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure7.29e-21118
endoderm7.29e-21118
presumptive endoderm7.29e-21118
digestive system1.61e-20116
digestive tract1.61e-20116
primitive gut1.61e-20116
subdivision of digestive tract2.91e-19114
gut epithelium2.79e-1155
unilaminar epithelium3.29e-1166
hemolymphoid system5.92e-1148
immune system5.92e-1148
endo-epithelium5.98e-1169
organ component layer1.04e-0924
foregut1.50e-0980
hematopoietic system2.70e-0945
blood island2.70e-0945
gastrointestinal system7.14e-0947
intestine8.52e-0931
mixed endoderm/mesoderm-derived structure1.95e-0835
mucosa8.48e-0815
hemopoietic organ1.74e-0729
immune organ1.74e-0729
segment of respiratory tract8.70e-0727


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}}}