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MCL coexpression mm9:3410: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0002009;morphogenesis of an epithelium;0.00117109890845715;231470,242022!GO:0005578;proteinaceous extracellular matrix;0.0030265484985257;231470,242022!GO:0005509;calcium ion binding;0.0158066355403779;231470,242022!GO:0009653;anatomical structure morphogenesis;0.0239739695445607;231470,242022!GO:0005604;basement membrane;0.0352666688830607;231470!GO:0007156;homophilic cell adhesion;0.0353463342013169;242022!GO:0044420;extracellular matrix part;0.0353463342013169;231470!GO:0048856;anatomical structure development;0.0353463342013169;231470,242022!GO:0044421;extracellular region part;0.0377867089092641;231470,242022!
|gostat_on_MCL_coexpression=GO:0002009;morphogenesis of an epithelium;0.00117109890845715;231470,242022!GO:0005578;proteinaceous extracellular matrix;0.0030265484985257;231470,242022!GO:0005509;calcium ion binding;0.0158066355403779;231470,242022!GO:0009653;anatomical structure morphogenesis;0.0239739695445607;231470,242022!GO:0005604;basement membrane;0.0352666688830607;231470!GO:0007156;homophilic cell adhesion;0.0353463342013169;242022!GO:0044420;extracellular matrix part;0.0353463342013169;231470!GO:0048856;anatomical structure development;0.0353463342013169;231470,242022!GO:0044421;extracellular region part;0.0377867089092641;231470,242022!
}}
}}

Revision as of 13:28, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr3:53461261..53461313,-p1@Frem2
Mm9::chr5:96803165..96803184,+p3@Fras1
Mm9::chr5:96803186..96803232,+p1@Fras1


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:0002009morphogenesis of an epithelium0.00117109890845715
GO:0005578proteinaceous extracellular matrix0.0030265484985257
GO:0005509calcium ion binding0.0158066355403779
GO:0009653anatomical structure morphogenesis0.0239739695445607
GO:0005604basement membrane0.0352666688830607
GO:0007156homophilic cell adhesion0.0353463342013169
GO:0044420extracellular matrix part0.0353463342013169
GO:0048856anatomical structure development0.0353463342013169
GO:0044421extracellular region part0.0377867089092641



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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