MCL coexpression mm9:3474

Phase1 CAGE Peaks

	Short description
Mm9::chr4:40090493..40090535,+	p2@Aco1
Mm9::chr4:40090543..40090554,+	p3@Aco1
Mm9::chr9:103966008..103966040,+	p2@Acad11

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:0030350	iron-responsive element binding	0.00964198644664237
GO:0003994	aconitate hydratase activity	0.00964198644664237
GO:0006091	generation of precursor metabolites and energy	0.0146926514014748
GO:0003995	acyl-CoA dehydrogenase activity	0.0218360101574241
GO:0051539	4 iron, 4 sulfur cluster binding	0.0218360101574241
GO:0055072	iron ion homeostasis	0.0218360101574241
GO:0006099	tricarboxylic acid cycle	0.0218360101574241
GO:0006879	cellular iron ion homeostasis	0.0218360101574241
GO:0046356	acetyl-CoA catabolic process	0.0218360101574241
GO:0009060	aerobic respiration	0.0218360101574241
GO:0009109	coenzyme catabolic process	0.0218360101574241
GO:0045333	cellular respiration	0.0218360101574241
GO:0003729	mRNA binding	0.0218360101574241
GO:0051187	cofactor catabolic process	0.0218360101574241
GO:0006084	acetyl-CoA metabolic process	0.0218360101574241
GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	0.0230077630181863
GO:0051536	iron-sulfur cluster binding	0.0230077630181863
GO:0051540	metal cluster binding	0.0230077630181863
GO:0016836	hydro-lyase activity	0.0248341587454829
GO:0050660	FAD binding	0.0270470899900274
GO:0016835	carbon-oxygen lyase activity	0.0270470899900274
GO:0015980	energy derivation by oxidation of organic compounds	0.0288752440179602
GO:0042579	microbody	0.0352706574318195
GO:0005777	peroxisome	0.0352706574318195
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0362472931151761
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0362472931151761
GO:0030003	cellular cation homeostasis	0.0367401753938845
GO:0055080	cation homeostasis	0.0367401753938845
GO:0050662	coenzyme binding	0.0384474968968982
GO:0006417	regulation of translation	0.0419545494583387
GO:0031326	regulation of cellular biosynthetic process	0.0424022794648206
GO:0055082	cellular chemical homeostasis	0.0424022794648206
GO:0006873	cellular ion homeostasis	0.0424022794648206
GO:0016829	lyase activity	0.0424022794648206
GO:0009889	regulation of biosynthetic process	0.0424022794648206
GO:0006732	coenzyme metabolic process	0.0424022794648206
GO:0050801	ion homeostasis	0.0424338769084272
GO:0048037	cofactor binding	0.0424338769084272
GO:0051186	cofactor metabolic process	0.0459977810919878
GO:0048878	chemical homeostasis	0.0493368470455996
GO:0019725	cellular homeostasis	0.0493368470455996

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
exocrine gland	2.26e-10	25
exocrine system	2.26e-10	25
intestine	2.45e-10	31
trunk region element	1.06e-09	79
digestive tract diverticulum	2.09e-09	23
sac	2.09e-09	23
liver	5.86e-09	22
epithelial sac	5.86e-09	22
digestive gland	5.86e-09	22
epithelium of foregut-midgut junction	5.86e-09	22
anatomical boundary	5.86e-09	22
hepatobiliary system	5.86e-09	22
foregut-midgut junction	5.86e-09	22
hepatic diverticulum	5.86e-09	22
liver primordium	5.86e-09	22
septum transversum	5.86e-09	22
liver bud	5.86e-09	22
subdivision of trunk	1.12e-08	66
abdomen element	1.29e-08	49
abdominal segment element	1.29e-08	49
abdominal segment of trunk	1.29e-08	49
abdomen	1.29e-08	49
endoderm-derived structure	1.46e-08	118
endoderm	1.46e-08	118
presumptive endoderm	1.46e-08	118
digestive system	1.85e-08	116
digestive tract	1.85e-08	116
primitive gut	1.85e-08	116
trunk	1.94e-08	90
gastrointestinal system	2.60e-08	47
subdivision of digestive tract	8.90e-08	114
mesenchyme	1.49e-07	61
entire embryonic mesenchyme	1.49e-07	61
epithelial tube	2.10e-07	47
trunk mesenchyme	3.58e-07	45

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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