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MCL coexpression mm9:2151: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0005638;lamin filament;0.00405412808853339;16905!GO:0006998;nuclear membrane organization and biogenesis;0.00405412808853339;16905!GO:0005652;nuclear lamina;0.00405412808853339;16905!GO:0005637;nuclear inner membrane;0.00405412808853339;16905!GO:0006997;nuclear organization and biogenesis;0.0105407330301868;16905!GO:0044453;nuclear membrane part;0.0182435763984003;16905!GO:0031965;nuclear membrane;0.0182435763984003;16905!GO:0005635;nuclear envelope;0.024527474935627;16905!GO:0005882;intermediate filament;0.024527474935627;16905!GO:0045111;intermediate filament cytoskeleton;0.024527474935627;16905!GO:0016044;membrane organization and biogenesis;0.0402034368779562;16905!GO:0019866;organelle inner membrane;0.0402034368779562;16905!GO:0012505;endomembrane system;0.045375048990893;16905!
}}
}}

Revision as of 13:08, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr15:76036727..76036732,-p21@Plec
Mm9::chr15:76036739..76036787,-p3@Plec
Mm9::chr3:88307109..88307245,-p1@Lmna
Mm9::chr3:88307253..88307272,-p2@Lmna


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:0005638lamin filament0.00405412808853339
GO:0006998nuclear membrane organization and biogenesis0.00405412808853339
GO:0005652nuclear lamina0.00405412808853339
GO:0005637nuclear inner membrane0.00405412808853339
GO:0006997nuclear organization and biogenesis0.0105407330301868
GO:0044453nuclear membrane part0.0182435763984003
GO:0031965nuclear membrane0.0182435763984003
GO:0005635nuclear envelope0.024527474935627
GO:0005882intermediate filament0.024527474935627
GO:0045111intermediate filament cytoskeleton0.024527474935627
GO:0016044membrane organization and biogenesis0.0402034368779562
GO:0019866organelle inner membrane0.0402034368779562
GO:0012505endomembrane system0.045375048990893



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)

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