MCL coexpression mm9:1192

Phase1 CAGE Peaks

	Short description
Mm9::chr3:107815477..107815490,-	p@chr3:107815477..107815490 -
Mm9::chr3:107847603..107847656,-	p2@Gstm4
Mm9::chr3:97432767..97432787,+	p1@Fmo5
Mm9::chr3:97455674..97455688,+	p@chr3:97455674..97455688 +
Mm9::chr3:97455708..97455720,+	p@chr3:97455708..97455720 +
Mm9::chr3:97455776..97455788,+	p@chr3:97455776..97455788 +
Mm9::chr5:117083024..117083028,-	p@chr5:117083024..117083028 -

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:0042537	benzene and derivative metabolic process	0.00208184955897661
GO:0042178	xenobiotic catabolic process	0.00208184955897661
GO:0018916	nitrobenzene metabolic process	0.00208184955897661
GO:0004499	flavin-containing monooxygenase activity	0.00780608038529814
GO:0050661	NADP binding	0.0124866489573661
GO:0006805	xenobiotic metabolic process	0.0124866489573661
GO:0009410	response to xenobiotic stimulus	0.0124866489573661
GO:0043449	alkene metabolic process	0.0130510042663577
GO:0016709	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen	0.0130510042663577
GO:0031227	intrinsic to endoplasmic reticulum membrane	0.0130510042663577
GO:0004364	glutathione transferase activity	0.0130510042663577
GO:0016765	transferase activity, transferring alkyl or aryl (other than methyl) groups	0.0262787067516743
GO:0031300	intrinsic to organelle membrane	0.0262787067516743
GO:0050660	FAD binding	0.0262787067516743
GO:0005789	endoplasmic reticulum membrane	0.0284391120597181
GO:0042175	nuclear envelope-endoplasmic reticulum network	0.0284391120597181
GO:0044432	endoplasmic reticulum part	0.0293272112718888
GO:0006725	aromatic compound metabolic process	0.037049602663685
GO:0050662	coenzyme binding	0.037049602663685
GO:0004497	monooxygenase activity	0.037049602663685
GO:0016705	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	0.037049602663685
GO:0005792	microsome	0.0424504675122203
GO:0042598	vesicular fraction	0.0424504675122203
GO:0048037	cofactor binding	0.0435188339884722

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	4.04e-16	118
endoderm	4.04e-16	118
presumptive endoderm	4.04e-16	118
digestive system	4.09e-16	116
digestive tract	4.09e-16	116
primitive gut	4.09e-16	116
liver	6.99e-15	22
epithelial sac	6.99e-15	22
digestive gland	6.99e-15	22
epithelium of foregut-midgut junction	6.99e-15	22
anatomical boundary	6.99e-15	22
hepatobiliary system	6.99e-15	22
foregut-midgut junction	6.99e-15	22
hepatic diverticulum	6.99e-15	22
liver primordium	6.99e-15	22
septum transversum	6.99e-15	22
liver bud	6.99e-15	22
subdivision of digestive tract	8.72e-15	114
digestive tract diverticulum	6.94e-14	23
sac	6.94e-14	23
intestine	3.50e-12	31
exocrine gland	3.82e-12	25
exocrine system	3.82e-12	25
gastrointestinal system	1.60e-11	47
trunk mesenchyme	4.68e-11	45
abdomen element	6.37e-10	49
abdominal segment element	6.37e-10	49
abdominal segment of trunk	6.37e-10	49
abdomen	6.37e-10	49
mesenchyme	9.07e-09	61
entire embryonic mesenchyme	9.07e-09	61
subdivision of trunk	6.06e-08	66
epithelial tube	6.81e-08	47
trunk region element	5.86e-07	79

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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