MCL coexpression mm9:1236

Phase1 CAGE Peaks

	Short description
Mm9::chr10:18564818..18564829,+	p3@Perp
Mm9::chr11:75323579..75323606,+	p1@Rilp
Mm9::chr11:75323608..75323630,+	p3@Rilp
Mm9::chr11:93816942..93817021,-	p3@Nme2
Mm9::chr17:56256960..56256974,-	p2@Plin5
Mm9::chr3:79432674..79432685,-	p3@Etfdh

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:0009054	electron acceptor activity	0.0159947409747897
GO:0016649	oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor	0.0159947409747897
GO:0004174	electron-transferring-flavoprotein dehydrogenase activity	0.0159947409747897
GO:0005739	mitochondrion	0.0159947409747897
GO:0017133	mitochondrial electron transfer flavoprotein complex	0.0159947409747897
GO:0045251	electron transfer flavoprotein complex	0.0159947409747897
GO:0044444	cytoplasmic part	0.0164043131918743
GO:0046039	GTP metabolic process	0.0179852122329424
GO:0006228	UTP biosynthetic process	0.0179852122329424
GO:0006183	GTP biosynthetic process	0.0179852122329424
GO:0046036	CTP metabolic process	0.0179852122329424
GO:0009209	pyrimidine ribonucleoside triphosphate biosynthetic process	0.0179852122329424
GO:0046051	UTP metabolic process	0.0179852122329424
GO:0009208	pyrimidine ribonucleoside triphosphate metabolic process	0.0179852122329424
GO:0006241	CTP biosynthetic process	0.0179852122329424
GO:0004550	nucleoside diphosphate kinase activity	0.0179852122329424
GO:0009220	pyrimidine ribonucleotide biosynthetic process	0.019536278097304
GO:0009218	pyrimidine ribonucleotide metabolic process	0.019536278097304
GO:0009147	pyrimidine nucleoside triphosphate metabolic process	0.0201889437298985
GO:0006221	pyrimidine nucleotide biosynthetic process	0.0275909713205747
GO:0006220	pyrimidine nucleotide metabolic process	0.0275909713205747
GO:0051539	4 iron, 4 sulfur cluster binding	0.0275909713205747
GO:0016645	oxidoreductase activity, acting on the CH-NH group of donors	0.0277780995794519
GO:0016776	phosphotransferase activity, phosphate group as acceptor	0.0372444493694653
GO:0005737	cytoplasm	0.0419193300402541
GO:0019205	nucleobase, nucleoside, nucleotide kinase activity	0.0441731426607082
GO:0051536	iron-sulfur cluster binding	0.0456348127013525
GO:0051540	metal cluster binding	0.0456348127013525
GO:0009145	purine nucleoside triphosphate biosynthetic process	0.0456348127013525
GO:0009206	purine ribonucleoside triphosphate biosynthetic process	0.0456348127013525
GO:0009201	ribonucleoside triphosphate biosynthetic process	0.0456348127013525
GO:0009142	nucleoside triphosphate biosynthetic process	0.0456348127013525
GO:0009205	purine ribonucleoside triphosphate metabolic process	0.0456348127013525
GO:0009199	ribonucleoside triphosphate metabolic process	0.0456348127013525
GO:0009144	purine nucleoside triphosphate metabolic process	0.0456348127013525
GO:0031980	mitochondrial lumen	0.0456348127013525
GO:0005759	mitochondrial matrix	0.0456348127013525
GO:0009141	nucleoside triphosphate metabolic process	0.0465467683456577
GO:0009152	purine ribonucleotide biosynthetic process	0.0465467683456577
GO:0009260	ribonucleotide biosynthetic process	0.0466031801971308
GO:0043231	intracellular membrane-bound organelle	0.0466031801971308
GO:0043227	membrane-bound organelle	0.0466031801971308
GO:0009150	purine ribonucleotide metabolic process	0.0470169299095507
GO:0006164	purine nucleotide biosynthetic process	0.0470169299095507
GO:0009259	ribonucleotide metabolic process	0.0494880727989972

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	8.60e-13	47
exocrine gland	5.53e-10	25
exocrine system	5.53e-10	25
digestive tract diverticulum	4.03e-09	23
sac	4.03e-09	23
liver	7.07e-09	22
epithelial sac	7.07e-09	22
digestive gland	7.07e-09	22
epithelium of foregut-midgut junction	7.07e-09	22
anatomical boundary	7.07e-09	22
hepatobiliary system	7.07e-09	22
foregut-midgut junction	7.07e-09	22
hepatic diverticulum	7.07e-09	22
liver primordium	7.07e-09	22
septum transversum	7.07e-09	22
liver bud	7.07e-09	22
intestine	3.69e-07	31

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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