MCL coexpression mm9:628

Phase1 CAGE Peaks

	Short description
Mm9::chr5:17080038..17080058,+	p14@Sema3c
Mm9::chr5:17080241..17080257,+	p8@Sema3c
Mm9::chr5:17080288..17080304,+	p2@Sema3c
Mm9::chr5:17080358..17080367,+	p10@Sema3c
Mm9::chr5:17080389..17080396,+	p13@Sema3c
Mm9::chr5:17080403..17080423,+	p7@Sema3c
Mm9::chr5:17080426..17080449,+	p3@Sema3c
Mm9::chr5:17080456..17080484,+	p4@Sema3c
Mm9::chr5:17080485..17080504,+	p6@Sema3c
Mm9::chr5:17080513..17080532,+	p5@Sema3c
Mm9::chr5:17082856..17082864,+	p@chr5:17082856..17082864 +
Mm9::chr8:122190143..122190152,+	p5@Wfdc1

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

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GO ID	GO name	FDR corrected p-value
GO:0030215	semaphorin receptor binding	0.0046019832356325
GO:0001974	blood vessel remodeling	0.0224113141921173
GO:0001755	neural crest cell migration	0.0224113141921173
GO:0009791	post-embryonic development	0.0224113141921173
GO:0014033	neural crest cell differentiation	0.0224113141921173
GO:0014032	neural crest cell development	0.0224113141921173
GO:0048762	mesenchymal cell differentiation	0.0224113141921173
GO:0014031	mesenchymal cell development	0.0224113141921173
GO:0004867	serine-type endopeptidase inhibitor activity	0.046250788779941
GO:0005615	extracellular space	0.046250788779941
GO:0044421	extracellular region part	0.046250788779941
GO:0048771	tissue remodeling	0.046250788779941
GO:0004866	endopeptidase inhibitor activity	0.0466112836959704
GO:0030414	protease inhibitor activity	0.0466112836959704
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	0.0466112836959704
GO:0007507	heart development	0.0466112836959704
GO:0048514	blood vessel morphogenesis	0.0466112836959704
GO:0001568	blood vessel development	0.0471342349206472
GO:0001944	vasculature development	0.0471342349206472
GO:0004857	enzyme inhibitor activity	0.0471342349206472

Relative expression of the co-expression cluster over median <br>Analyst:

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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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
multi-cellular organism	1.91e-10	333
anatomical space	2.10e-09	57
thoracic cavity element	4.27e-07	17
thoracic segment organ	4.27e-07	17
thoracic cavity	4.27e-07	17
thoracic segment of trunk	4.27e-07	17
respiratory primordium	4.27e-07	17
endoderm of foregut	4.27e-07	17
reproductive structure	6.24e-07	26
reproductive system	6.24e-07	26

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

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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