MCL coexpression mm9:1039

Phase1 CAGE Peaks

	Short description
Mm9::chr10:75398623..75398653,+	p1@Chchd10
Mm9::chr16:4684099..4684137,+	p1@Dnaja3
Mm9::chr2:118687722..118687744,+	p1@Ivd
Mm9::chr2:118687745..118687758,+	p2@Ivd
Mm9::chr4:151551921..151551936,+	p3@Acot7
Mm9::chr6:52590241..52590253,-	p2@Hibadh
Mm9::chr8:63966512..63966548,+	p1@Cbr4

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:0008470	isovaleryl-CoA dehydrogenase activity	0.00807997794267702
GO:0006573	valine metabolic process	0.00807997794267702
GO:0008442	3-hydroxyisobutyrate dehydrogenase activity	0.00807997794267702
GO:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.00807997794267702
GO:0050662	coenzyme binding	0.00807997794267702
GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	0.00807997794267702
GO:0004316	3-oxoacyl-[acyl-carrier-protein] reductase activity	0.00807997794267702
GO:0009062	fatty acid catabolic process	0.00807997794267702
GO:0016491	oxidoreductase activity	0.00874906374718147
GO:0004616	phosphogluconate dehydrogenase (decarboxylating) activity	0.00887057747633578
GO:0048037	cofactor binding	0.00887057747633578
GO:0005739	mitochondrion	0.0116250181027593
GO:0004312	fatty-acid synthase activity	0.0124266493749851
GO:0046395	carboxylic acid catabolic process	0.0129222992076651
GO:0016054	organic acid catabolic process	0.0129222992076651
GO:0009081	branched chain family amino acid metabolic process	0.0141322160224741
GO:0006098	pentose-phosphate shunt	0.0143549637651335
GO:0006740	NADPH regeneration	0.0143549637651335
GO:0016290	palmitoyl-CoA hydrolase activity	0.0186930827713556
GO:0005829	cytosol	0.0190751224128284
GO:0044444	cytoplasmic part	0.0190751224128284
GO:0016291	acyl-CoA thioesterase activity	0.0190751224128284
GO:0006739	NADP metabolic process	0.0196471368667866
GO:0003995	acyl-CoA dehydrogenase activity	0.0206530341095781
GO:0016289	CoA hydrolase activity	0.0206530341095781
GO:0044248	cellular catabolic process	0.021631562070282
GO:0019752	carboxylic acid metabolic process	0.0236493803871915
GO:0006082	organic acid metabolic process	0.0236493803871915
GO:0051287	NAD binding	0.0236493803871915
GO:0006769	nicotinamide metabolic process	0.0236493803871915
GO:0019362	pyridine nucleotide metabolic process	0.0249616164641196
GO:0044242	cellular lipid catabolic process	0.0279736970247396
GO:0009056	catabolic process	0.0279736970247396
GO:0006733	oxidoreduction coenzyme metabolic process	0.0303189034023962
GO:0006767	water-soluble vitamin metabolic process	0.0358678919018525
GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	0.0375416456033633
GO:0031072	heat shock protein binding	0.0417177120662889
GO:0006007	glucose catabolic process	0.0425852196503891
GO:0046365	monosaccharide catabolic process	0.0425852196503891
GO:0019320	hexose catabolic process	0.0425852196503891
GO:0046164	alcohol catabolic process	0.0438838185182793
GO:0051082	unfolded protein binding	0.0440697942513917
GO:0050660	FAD binding	0.0440697942513917
GO:0006766	vitamin metabolic process	0.0452432408623376
GO:0044275	cellular carbohydrate catabolic process	0.0470712521752496

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
epithelial tube	2.02e-09	47
exocrine gland	6.99e-08	25
exocrine system	6.99e-08	25
digestive tract diverticulum	3.62e-07	23
sac	3.62e-07	23
liver	5.93e-07	22
epithelial sac	5.93e-07	22
digestive gland	5.93e-07	22
epithelium of foregut-midgut junction	5.93e-07	22
anatomical boundary	5.93e-07	22
hepatobiliary system	5.93e-07	22
foregut-midgut junction	5.93e-07	22
hepatic diverticulum	5.93e-07	22
liver primordium	5.93e-07	22
septum transversum	5.93e-07	22
liver bud	5.93e-07	22

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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