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MCL coexpression mm9:3042: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0007399;nervous system development;0.0217461573508419;20360,20357!GO:0048731;system development;0.032358021051397;20360,20357!GO:0048869;cellular developmental process;0.032358021051397;20360,20357!GO:0030154;cell differentiation;0.032358021051397;20360,20357!GO:0048856;anatomical structure development;0.032358021051397;20360,20357!GO:0005615;extracellular space;0.032358021051397;20360,20357!GO:0044421;extracellular region part;0.032358021051397;20360,20357!GO:0007275;multicellular organismal development;0.032358021051397;20360,20357!GO:0032502;developmental process;0.0498043738766139;20360,20357!
|gostat_on_MCL_coexpression=GO:0007399;nervous system development;0.0217461573508419;20360,20357!GO:0048731;system development;0.032358021051397;20360,20357!GO:0048869;cellular developmental process;0.032358021051397;20360,20357!GO:0030154;cell differentiation;0.032358021051397;20360,20357!GO:0048856;anatomical structure development;0.032358021051397;20360,20357!GO:0005615;extracellular space;0.032358021051397;20360,20357!GO:0044421;extracellular region part;0.032358021051397;20360,20357!GO:0007275;multicellular organismal development;0.032358021051397;20360,20357!GO:0032502;developmental process;0.0498043738766139;20360,20357!
}}
}}

Revision as of 13:22, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr16:35541361..35541425,+p1@Sema5b
Mm9::chr3:94964371..94964427,+p1@Sema6c
Mm9::chr3:94964891..94964895,+p@chr3:94964891..94964895
+


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:0007399nervous system development0.0217461573508419
GO:0048731system development0.032358021051397
GO:0048869cellular developmental process0.032358021051397
GO:0030154cell differentiation0.032358021051397
GO:0048856anatomical structure development0.032358021051397
GO:0005615extracellular space0.032358021051397
GO:0044421extracellular region part0.032358021051397
GO:0007275multicellular organismal development0.032358021051397
GO:0032502developmental process0.0498043738766139



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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