MCL coexpression mm9:779

Phase1 CAGE Peaks

	Short description
Mm9::chr11:120538639..120538669,+	p11@Aspscr1
Mm9::chr11:5815129..5815144,-	p1@Gck
Mm9::chr12:73729838..73729853,-	p@chr12:73729838..73729853 -
Mm9::chr12:73729855..73729874,-	p@chr12:73729855..73729874 -
Mm9::chr12:73729883..73729894,-	p@chr12:73729883..73729894 -
Mm9::chr12:73729916..73729925,-	p@chr12:73729916..73729925 -
Mm9::chr12:73729943..73729952,-	p@chr12:73729943..73729952 -
Mm9::chr19:39537557..39537571,-	p1@Cyp2c38
Mm9::chr7:31729038..31729054,-	p1@Hamp

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:0048878	chemical homeostasis	0.000751951602892798
GO:0042593	glucose homeostasis	0.000751951602892798
GO:0033500	carbohydrate homeostasis	0.000751951602892798
GO:0042592	homeostatic process	0.000907847436039409
GO:0000267	cell fraction	0.00259532194131859
GO:0051049	regulation of transport	0.00343572495553038
GO:0065008	regulation of biological quality	0.00343572495553038
GO:0004340	glucokinase activity	0.00404195352970897
GO:0032024	positive regulation of insulin secretion	0.00404195352970897
GO:0005792	microsome	0.00658136694942709
GO:0042598	vesicular fraction	0.00658136694942709
GO:0050832	defense response to fungus	0.00909290069114756
GO:0019725	cellular homeostasis	0.0100350514033023
GO:0001678	cell glucose homeostasis	0.0103893245423907
GO:0043266	regulation of potassium ion transport	0.0103893245423907
GO:0046323	glucose import	0.0103893245423907
GO:0046324	regulation of glucose import	0.0103893245423907
GO:0046835	carbohydrate phosphorylation	0.0103893245423907
GO:0009898	internal side of plasma membrane	0.0103893245423907
GO:0004396	hexokinase activity	0.0103893245423907
GO:0000300	peripheral to membrane of membrane fraction	0.0103893245423907
GO:0050796	regulation of insulin secretion	0.0181738477443164
GO:0043269	regulation of ion transport	0.0189624563800178
GO:0009620	response to fungus	0.0196850987954215
GO:0006739	NADP metabolic process	0.0203496909631566
GO:0005624	membrane fraction	0.0220875780328587
GO:0046883	regulation of hormone secretion	0.0269043085221581
GO:0006769	nicotinamide metabolic process	0.0272316569735245
GO:0030073	insulin secretion	0.0272316569735245
GO:0019362	pyridine nucleotide metabolic process	0.0272316569735245
GO:0055072	iron ion homeostasis	0.0272316569735245
GO:0006879	cellular iron ion homeostasis	0.0272316569735245
GO:0015758	glucose transport	0.0276980184414035
GO:0008645	hexose transport	0.0276980184414035
GO:0030072	peptide hormone secretion	0.0276980184414035
GO:0015749	monosaccharide transport	0.0276980184414035
GO:0002790	peptide secretion	0.0276980184414035
GO:0019200	carbohydrate kinase activity	0.0276980184414035
GO:0006733	oxidoreduction coenzyme metabolic process	0.0290280042862062
GO:0050381	unspecific monooxygenase activity	0.0290280042862062
GO:0048471	perinuclear region of cytoplasm	0.0309673661411862
GO:0015833	peptide transport	0.0320500055687079
GO:0016712	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen	0.0320500055687079
GO:0006767	water-soluble vitamin metabolic process	0.0321432061621352
GO:0046879	hormone secretion	0.0330352193800603
GO:0006096	glycolysis	0.0354582835388274
GO:0051046	regulation of secretion	0.0382632967523427
GO:0006007	glucose catabolic process	0.0382632967523427
GO:0046365	monosaccharide catabolic process	0.0382632967523427
GO:0019320	hexose catabolic process	0.0382632967523427
GO:0005625	soluble fraction	0.0382632967523427
GO:0012506	vesicle membrane	0.0382632967523427
GO:0046164	alcohol catabolic process	0.0382632967523427
GO:0008643	carbohydrate transport	0.0408023295041978
GO:0006766	vitamin metabolic process	0.0408023295041978
GO:0044275	cellular carbohydrate catabolic process	0.0426450879325889
GO:0019898	extrinsic to membrane	0.0437905296077511
GO:0016052	carbohydrate catabolic process	0.0448955523849472
GO:0044444	cytoplasmic part	0.0462388432671752

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><br>

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Cell Type

Ontology term	p-value	n
metabolising cell	3.82e-26	5
endopolyploid cell	3.82e-26	5
parenchymal cell	3.82e-26	5
polyploid cell	3.82e-26	5
hepatocyte	3.82e-26	5
fibroblast	3.65e-09	1
hepatic stellate cell	3.65e-09	1
endodermal cell	8.99e-07	20

Uber Anatomy

Ontology term	p-value	n
liver	9.03e-23	22
epithelial sac	9.03e-23	22
digestive gland	9.03e-23	22
epithelium of foregut-midgut junction	9.03e-23	22
anatomical boundary	9.03e-23	22
hepatobiliary system	9.03e-23	22
foregut-midgut junction	9.03e-23	22
hepatic diverticulum	9.03e-23	22
liver primordium	9.03e-23	22
septum transversum	9.03e-23	22
liver bud	9.03e-23	22
digestive tract diverticulum	9.16e-22	23
sac	9.16e-22	23
exocrine gland	5.41e-20	25
exocrine system	5.41e-20	25
trunk mesenchyme	9.74e-14	45
abdomen element	1.44e-12	49
abdominal segment element	1.44e-12	49
abdominal segment of trunk	1.44e-12	49
abdomen	1.44e-12	49
epithelial tube	2.06e-10	47
endocrine gland	3.82e-10	60
mesenchyme	5.75e-10	61
entire embryonic mesenchyme	5.75e-10	61
gland	2.60e-09	65
subdivision of trunk	3.69e-09	66
gut epithelium	8.15e-09	55
endocrine system	2.45e-08	72
trunk region element	1.56e-07	79
unilaminar epithelium	3.03e-07	66
endo-epithelium	6.67e-07	69

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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