MCL coexpression mm9:597

Phase1 CAGE Peaks

	Short description
Mm9::chr11:113612097..113612161,-	p3@Cdc42ep4
Mm9::chr11:120434178..120434195,-	p1@P4hb
Mm9::chr13:115879674..115879694,+	p@chr13:115879674..115879694 +
Mm9::chr13:115879700..115879724,+	p@chr13:115879700..115879724 +
Mm9::chr18:57514387..57514451,+	p1@Prrc1
Mm9::chr3:122970363..122970418,+	p1@Sec24d
Mm9::chr3:40886914..40886946,-	p1@Pgrmc2
Mm9::chr4:118217520..118217535,-	p@chr4:118217520..118217535 -
Mm9::chr5:100845134..100845301,-	p1@Sec31a
Mm9::chr5:115420882..115420896,-	p3@Hnf1a
Mm9::chr5:144165498..144165561,+	p1@Kdelr2
Mm9::chr5:23934029..23934061,+	p3@Slc4a2

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

---

GO ID	GO name	FDR corrected p-value
GO:0008104	protein localization	0.0320997394001498
GO:0033036	macromolecule localization	0.0320997394001498
GO:0046483	heterocycle metabolic process	0.0320997394001498
GO:0043691	reverse cholesterol transport	0.0320997394001498
GO:0005046	KDEL sequence binding	0.0320997394001498
GO:0015721	bile acid and bile salt transport	0.0320997394001498
GO:0004656	procollagen-proline 4-dioxygenase activity	0.0320997394001498
GO:0018401	peptidyl-proline hydroxylation to 4-hydroxy-L-proline	0.0320997394001498
GO:0019511	peptidyl-proline hydroxylation	0.0320997394001498
GO:0031545	peptidyl-proline 4-dioxygenase activity	0.0320997394001498
GO:0046923	ER retention sequence binding	0.0320997394001498
GO:0006621	protein retention in ER	0.0320997394001498
GO:0019471	4-hydroxyproline metabolic process	0.0320997394001498
GO:0009743	response to carbohydrate stimulus	0.0320997394001498
GO:0006699	bile acid biosynthetic process	0.0320997394001498
GO:0009746	response to hexose stimulus	0.0320997394001498
GO:0009749	response to glucose stimulus	0.0320997394001498
GO:0018208	peptidyl-proline modification	0.0320997394001498
GO:0006810	transport	0.0320997394001498
GO:0015908	fatty acid transport	0.0320997394001498
GO:0051234	establishment of localization	0.0320997394001498
GO:0015031	protein transport	0.0320997394001498
GO:0048341	paraxial mesoderm formation	0.0320997394001498
GO:0031543	peptidyl-proline dioxygenase activity	0.0320997394001498
GO:0019798	procollagen-proline dioxygenase activity	0.0320997394001498
GO:0015718	monocarboxylic acid transport	0.0320997394001498
GO:0032507	maintenance of cellular protein localization	0.0320997394001498
GO:0042802	identical protein binding	0.0320997394001498
GO:0045184	establishment of protein localization	0.0320997394001498
GO:0016864	intramolecular oxidoreductase activity, transposing S-S bonds	0.0320997394001498
GO:0003756	protein disulfide isomerase activity	0.0320997394001498
GO:0031018	endocrine pancreas development	0.0320997394001498
GO:0005783	endoplasmic reticulum	0.0326021141895586
GO:0051651	maintenance of cellular localization	0.0326021141895586
GO:0016862	intramolecular oxidoreductase activity, interconverting keto- and enol-groups	0.0326021141895586
GO:0005452	inorganic anion exchanger activity	0.0326021141895586
GO:0005048	signal sequence binding	0.0338486238688349
GO:0048340	paraxial mesoderm morphogenesis	0.0338486238688349
GO:0045185	maintenance of protein localization	0.0338486238688349
GO:0051179	localization	0.0343283832004196
GO:0015380	anion exchanger activity	0.0350596560803832
GO:0008206	bile acid metabolic process	0.0350596560803832
GO:0015106	bicarbonate transmembrane transporter activity	0.0350596560803832
GO:0050796	regulation of insulin secretion	0.0350596560803832
GO:0015301	anion:anion antiporter activity	0.0350596560803832
GO:0006783	heme biosynthetic process	0.0350596560803832
GO:0015108	chloride transmembrane transporter activity	0.0373555961627596
GO:0006779	porphyrin biosynthetic process	0.0373555961627596
GO:0048339	paraxial mesoderm development	0.0373555961627596
GO:0033014	tetrapyrrole biosynthetic process	0.0373555961627596
GO:0031016	pancreas development	0.0373555961627596
GO:0045120	pronucleus	0.0385486000284395
GO:0030301	cholesterol transport	0.0385486000284395
GO:0015918	sterol transport	0.0385486000284395
GO:0051235	maintenance of localization	0.0385486000284395
GO:0045453	bone resorption	0.0385486000284395
GO:0001750	photoreceptor outer segment	0.0385486000284395
GO:0042168	heme metabolic process	0.0404007155440419
GO:0031513	nonmotile primary cilium	0.0421889621772222
GO:0033013	tetrapyrrole metabolic process	0.0431965906050089
GO:0006778	porphyrin metabolic process	0.0431965906050089
GO:0046883	regulation of hormone secretion	0.0472013970439534
GO:0001889	liver development	0.0484875740425892
GO:0042592	homeostatic process	0.0484875740425892
GO:0030111	regulation of Wnt receptor signaling pathway	0.049503468730572

Relative expression of the co-expression cluster over median <br>Analyst:

---

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>

---

Uber Anatomy

Ontology term	p-value	n
intestine	2.54e-13	31
gastrointestinal system	1.92e-12	47
exocrine gland	6.26e-10	25
exocrine system	6.26e-10	25
digestive tract diverticulum	2.63e-09	23
sac	2.63e-09	23
endoderm-derived structure	3.27e-09	118
endoderm	3.27e-09	118
presumptive endoderm	3.27e-09	118
liver	4.87e-09	22
epithelial sac	4.87e-09	22
digestive gland	4.87e-09	22
epithelium of foregut-midgut junction	4.87e-09	22
anatomical boundary	4.87e-09	22
hepatobiliary system	4.87e-09	22
foregut-midgut junction	4.87e-09	22
hepatic diverticulum	4.87e-09	22
liver primordium	4.87e-09	22
septum transversum	4.87e-09	22
liver bud	4.87e-09	22
trunk region element	7.35e-09	79
digestive system	1.30e-08	116
digestive tract	1.30e-08	116
primitive gut	1.30e-08	116
trunk	1.66e-08	90
immaterial anatomical entity	5.77e-08	79
subdivision of digestive tract	6.87e-08	114
trunk mesenchyme	2.47e-07	45
mucosa	2.84e-07	15
pancreas	8.12e-07	12

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

---

Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
{{{tfbs_overrepresentation_jaspar}}}