MCL coexpression mm9:1228

Phase1 CAGE Peaks

	Short description
Mm9::chr10:127631777..127631811,+	p2@Gls2
Mm9::chr16:8513565..8513590,+	p1@Abat
Mm9::chr5:45841360..45841378,-	p2@Qdpr
Mm9::chr5:45841382..45841440,-	p1@Qdpr
Mm9::chr7:114711161..114711222,+	p2@Olfml1
Mm9::chr7:114711232..114711260,+	p4@Olfml1

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:0047298	(S)-3-amino-2-methylpropionate transaminase activity	0.0041634709950561
GO:0004155	6,7-dihydropteridine reductase activity	0.0041634709950561
GO:0003867	4-aminobutyrate transaminase activity	0.0041634709950561
GO:0004359	glutaminase activity	0.0041634709950561
GO:0009448	gamma-aminobutyric acid metabolic process	0.0041634709950561
GO:0019605	butyrate metabolic process	0.0041634709950561
GO:0046459	short-chain fatty acid metabolic process	0.00535274084634663
GO:0006519	amino acid and derivative metabolic process	0.00624383788019355
GO:0009308	amine metabolic process	0.00624383788019355
GO:0046146	tetrahydrobiopterin metabolic process	0.00624383788019355
GO:0006729	tetrahydrobiopterin biosynthetic process	0.00624383788019355
GO:0048148	behavioral response to cocaine	0.00624383788019355
GO:0006807	nitrogen compound metabolic process	0.00645743380769793
GO:0042220	response to cocaine	0.00713346895609554
GO:0014073	response to tropane	0.00713346895609554
GO:0042135	neurotransmitter catabolic process	0.00713346895609554
GO:0019752	carboxylic acid metabolic process	0.00713346895609554
GO:0006082	organic acid metabolic process	0.00713346895609554
GO:0016646	oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	0.00713346895609554
GO:0042559	pteridine and derivative biosynthetic process	0.00713346895609554
GO:0019438	aromatic compound biosynthetic process	0.00713346895609554
GO:0042558	pteridine and derivative metabolic process	0.00737625116058902
GO:0006541	glutamine metabolic process	0.00814012073937108
GO:0014070	response to organic cyclic substance	0.00832055629888129
GO:0043279	response to alkaloid	0.00848650230913251
GO:0016645	oxidoreductase activity, acting on the CH-NH group of donors	0.0095985374026547
GO:0008483	transaminase activity	0.0124733118923655
GO:0010033	response to organic substance	0.0129013042874089
GO:0009064	glutamine family amino acid metabolic process	0.0129013042874089
GO:0016769	transferase activity, transferring nitrogenous groups	0.0145458166495335
GO:0042133	neurotransmitter metabolic process	0.0148793421196347
GO:0005739	mitochondrion	0.0173689385913227
GO:0030170	pyridoxal phosphate binding	0.0173689385913227
GO:0016811	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	0.0175891186569008
GO:0030534	adult behavior	0.0216987099500702
GO:0006575	amino acid derivative metabolic process	0.0294401520806833
GO:0001505	regulation of neurotransmitter levels	0.0294401520806833
GO:0016810	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	0.0294401520806833
GO:0019842	vitamin binding	0.0334386147345175
GO:0006725	aromatic compound metabolic process	0.0350712547476216
GO:0006631	fatty acid metabolic process	0.0483223287291328
GO:0048037	cofactor binding	0.049508617140918

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
digestive tract diverticulum	2.78e-08	23
sac	2.78e-08	23
liver	4.54e-08	22
epithelial sac	4.54e-08	22
digestive gland	4.54e-08	22
epithelium of foregut-midgut junction	4.54e-08	22
anatomical boundary	4.54e-08	22
hepatobiliary system	4.54e-08	22
foregut-midgut junction	4.54e-08	22
hepatic diverticulum	4.54e-08	22
liver primordium	4.54e-08	22
septum transversum	4.54e-08	22
liver bud	4.54e-08	22
abdomen element	2.28e-07	49
abdominal segment element	2.28e-07	49
abdominal segment of trunk	2.28e-07	49
abdomen	2.28e-07	49

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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