MCL coexpression mm9:1832

Phase1 CAGE Peaks

	Short description
Mm9::chr6:72548588..72548603,+	p1@Retsat
Mm9::chr7:105499448..105499454,-	p@chr7:105499448..105499454 -
Mm9::chr7:105508945..105508980,-	p5@Tsku
Mm9::chr7:105509758..105509765,-	p4@Tsku
Mm9::chr7:105509785..105509805,-	p1@Tsku

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:0051786	all-trans-retinol 13,14-reductase activity	0.00383467085990169
GO:0042572	retinol metabolic process	0.00383467085990169
GO:0016117	carotenoid biosynthetic process	0.00383467085990169
GO:0016114	terpenoid biosynthetic process	0.00383467085990169
GO:0005640	nuclear outer membrane	0.00383467085990169
GO:0016109	tetraterpenoid biosynthetic process	0.00383467085990169
GO:0016116	carotenoid metabolic process	0.00383467085990169
GO:0016108	tetraterpenoid metabolic process	0.00383467085990169
GO:0001523	retinoid metabolic process	0.00920119297709492
GO:0016101	diterpenoid metabolic process	0.00920119297709492
GO:0006721	terpenoid metabolic process	0.00975830620272628
GO:0006776	vitamin A metabolic process	0.0100255672477407
GO:0008299	isoprenoid biosynthetic process	0.0100255672477407
GO:0031968	organelle outer membrane	0.0112428208673715
GO:0006775	fat-soluble vitamin metabolic process	0.0112428208673715
GO:0046148	pigment biosynthetic process	0.0124551687479699
GO:0006720	isoprenoid metabolic process	0.0130740339887141
GO:0042440	pigment metabolic process	0.0131985404761078
GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	0.0164714667062015
GO:0019748	secondary metabolic process	0.0164714667062015
GO:0019867	outer membrane	0.0167801800199425
GO:0050660	FAD binding	0.0192955015041163
GO:0044453	nuclear membrane part	0.0192955015041163
GO:0006766	vitamin metabolic process	0.0192955015041163
GO:0031965	nuclear membrane	0.0192955015041163
GO:0005789	endoplasmic reticulum membrane	0.0206108922087199
GO:0042175	nuclear envelope-endoplasmic reticulum network	0.0206964298290346
GO:0044432	endoplasmic reticulum part	0.0213760759761628
GO:0042445	hormone metabolic process	0.0213760759761628
GO:0005635	nuclear envelope	0.0275309638111959
GO:0050662	coenzyme binding	0.0286101241571493
GO:0016705	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	0.0298590547782988
GO:0048037	cofactor binding	0.0388684960662591

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
trunk mesenchyme	3.31e-07	45
mesenchyme	4.07e-07	61
entire embryonic mesenchyme	4.07e-07	61
digestive tract diverticulum	8.09e-07	23
sac	8.09e-07	23

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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