MCL coexpression mm9:818

Phase1 CAGE Peaks

	Short description
Mm9::chr13:93125094..93125131,+	p2@Dhfr
Mm9::chr14:30823509..30823529,+	p@chr14:30823509..30823529 +
Mm9::chr14:56097704..56097751,+	p1@Dhrs4
Mm9::chr14:56097761..56097778,+	p@chr14:56097761..56097778 +
Mm9::chr15:10911502..10911520,+	p2@Amacr
Mm9::chr19:10678843..10678857,-	p3@Dak
Mm9::chr1:164744073..164744084,-	p1@Fmo4
Mm9::chr4:40090113..40090140,+	p4@Aco1
Mm9::chr6:85087737..85087775,-	p1@Spr

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:0006720	isoprenoid metabolic process	0.00921864035950844
GO:0008111	alpha-methylacyl-CoA racemase activity	0.0107482502539566
GO:0006545	glycine biosynthetic process	0.0107482502539566
GO:0004371	glycerone kinase activity	0.0107482502539566
GO:0004146	dihydrofolate reductase activity	0.0107482502539566
GO:0008300	isoprenoid catabolic process	0.0107482502539566
GO:0042579	microbody	0.0107482502539566
GO:0005777	peroxisome	0.0107482502539566
GO:0003994	aconitate hydratase activity	0.0135507654932865
GO:0030350	iron-responsive element binding	0.0135507654932865
GO:0050662	coenzyme binding	0.0135507654932865
GO:0004995	tachykinin receptor activity	0.0173476077320651
GO:0016829	lyase activity	0.0182546376454438
GO:0001758	retinal dehydrogenase activity	0.0182546376454438
GO:0004090	carbonyl reductase (NADPH) activity	0.0182546376454438
GO:0048037	cofactor binding	0.0182546376454438
GO:0043288	apocarotenoid metabolic process	0.0182546376454438
GO:0042574	retinal metabolic process	0.0182546376454438
GO:0004499	flavin-containing monooxygenase activity	0.0182546376454438
GO:0016491	oxidoreductase activity	0.0198160634969006
GO:0009070	serine family amino acid biosynthetic process	0.0198160634969006
GO:0006544	glycine metabolic process	0.0252121552214093
GO:0050661	NADP binding	0.029694797603961
GO:0016646	oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	0.029694797603961
GO:0016854	racemase and epimerase activity	0.029694797603961
GO:0048265	response to pain	0.029694797603961
GO:0016101	diterpenoid metabolic process	0.029694797603961
GO:0001523	retinoid metabolic process	0.029694797603961
GO:0006721	terpenoid metabolic process	0.0334383196327042
GO:0006776	vitamin A metabolic process	0.0369292419083422
GO:0009069	serine family amino acid metabolic process	0.0379653600349381
GO:0051539	4 iron, 4 sulfur cluster binding	0.0395410453392476
GO:0006071	glycerol metabolic process	0.0395410453392476
GO:0019751	polyol metabolic process	0.0395410453392476
GO:0016645	oxidoreductase activity, acting on the CH-NH group of donors	0.0395410453392476
GO:0006775	fat-soluble vitamin metabolic process	0.0399409936252014
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	0.0399409936252014
GO:0006099	tricarboxylic acid cycle	0.0399409936252014
GO:0055072	iron ion homeostasis	0.0399409936252014
GO:0006879	cellular iron ion homeostasis	0.0399409936252014
GO:0033555	multicellular organismal response to stress	0.0399409936252014
GO:0046356	acetyl-CoA catabolic process	0.0399409936252014
GO:0044248	cellular catabolic process	0.0399409936252014
GO:0006091	generation of precursor metabolites and energy	0.0399409936252014
GO:0009060	aerobic respiration	0.0399409936252014
GO:0044242	cellular lipid catabolic process	0.0414499359845858
GO:0009109	coenzyme catabolic process	0.0414499359845858
GO:0016620	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	0.0414499359845858
GO:0045333	cellular respiration	0.0414499359845858
GO:0003729	mRNA binding	0.0414499359845858
GO:0051187	cofactor catabolic process	0.0433320978832634
GO:0006084	acetyl-CoA metabolic process	0.045140128544238
GO:0008652	amino acid biosynthetic process	0.0455835397780651
GO:0016903	oxidoreductase activity, acting on the aldehyde or oxo group of donors	0.0471976368569752
GO:0044255	cellular lipid metabolic process	0.0471976368569752
GO:0042923	neuropeptide binding	0.0471976368569752
GO:0008188	neuropeptide receptor activity	0.0471976368569752
GO:0009056	catabolic process	0.0485941260019537
GO:0051536	iron-sulfur cluster binding	0.0485941260019537
GO:0019748	secondary metabolic process	0.0485941260019537
GO:0051540	metal cluster binding	0.0485941260019537

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>cell_data<br>uberon_data<br>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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