MCL coexpression mm9:661

Phase1 CAGE Peaks

	Short description
Mm9::chr11:70272314..70272350,-	p@chr11:70272314..70272350 -
Mm9::chr11:70273427..70273451,-	p4@Cxcl16
Mm9::chr11:70273459..70273486,-	p3@Cxcl16
Mm9::chr11:70273488..70273503,-	p6@Cxcl16
Mm9::chr1:16095475..16095491,+	p1@Rdh10
Mm9::chr1:195128229..195128241,+	p5@Lamb3
Mm9::chr1:195128260..195128276,+	p1@Lamb3
Mm9::chr2:157202181..157202186,-	p@chr2:157202181..157202186 -
Mm9::chr2:60511711..60511788,-	p1@Itgb6
Mm9::chr4:123465100..123465129,+	p1@Rhbdl2
Mm9::chr7:108696379..108696386,+	p@chr7:108696379..108696386 +

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:0004745	retinol dehydrogenase activity	0.0363566590794229
GO:0005041	low-density lipoprotein receptor activity	0.0363566590794229
GO:0030169	low-density lipoprotein binding	0.0363566590794229
GO:0030228	lipoprotein receptor activity	0.0363566590794229
GO:0008034	lipoprotein binding	0.041451227913054
GO:0009605	response to external stimulus	0.041451227913054
GO:0005178	integrin binding	0.041451227913054
GO:0005605	basal lamina	0.041451227913054
GO:0005044	scavenger receptor activity	0.041451227913054
GO:0022610	biological adhesion	0.041451227913054
GO:0007155	cell adhesion	0.041451227913054
GO:0005102	receptor binding	0.041451227913054
GO:0008305	integrin complex	0.045938341315148
GO:0008009	chemokine activity	0.045938341315148
GO:0042379	chemokine receptor binding	0.045938341315148

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
endoderm-derived structure	4.63e-18	118
endoderm	4.63e-18	118
presumptive endoderm	4.63e-18	118
digestive system	1.58e-17	116
digestive tract	1.58e-17	116
primitive gut	1.58e-17	116
subdivision of digestive tract	3.13e-16	114
intestine	5.26e-13	31
gastrointestinal system	6.04e-13	47
mucosa	1.64e-09	15
intestinal mucosa	4.96e-08	13
anatomical wall	4.96e-08	13
wall of intestine	4.96e-08	13
gastrointestinal system mucosa	4.96e-08	13
organ component layer	7.80e-07	24

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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