MCL coexpression mm9:652

Phase1 CAGE Peaks

	Short description
Mm9::chr11:46512321..46512337,-	p4@Timd2
Mm9::chr11:55031211..55031234,+	p@chr11:55031211..55031234 +
Mm9::chr14:30822115..30822130,+	p5@Chdh
Mm9::chr15:85602581..85602598,+	p8@Ppara
Mm9::chr16:23029153..23029179,-	p1@Kng2
Mm9::chr16:23029188..23029211,-	p2@Kng2
Mm9::chr19:4594312..4594332,+	p5@Pcx
Mm9::chr19:4594337..4594361,+	p6@Pcx
Mm9::chr19:4594363..4594394,+	p3@Pcx
Mm9::chr19:4594398..4594422,+	p4@Pcx
Mm9::chr2:165298687..165298702,-	p1@Slc13a3

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:0006066	alcohol metabolic process	0.00410307789521319
GO:0019752	carboxylic acid metabolic process	0.00410307789521319
GO:0006082	organic acid metabolic process	0.00410307789521319
GO:0008812	choline dehydrogenase activity	0.00410307789521319
GO:0004736	pyruvate carboxylase activity	0.00410307789521319
GO:0031455	glycine betaine metabolic process	0.00410307789521319
GO:0006578	betaine biosynthetic process	0.00410307789521319
GO:0031456	glycine betaine biosynthetic process	0.00410307789521319
GO:0019285	glycine betaine biosynthetic process from choline	0.00410307789521319
GO:0006577	betaine metabolic process	0.00410307789521319
GO:0015362	high affinity sodium:dicarboxylate symporter activity	0.00410307789521319
GO:0006006	glucose metabolic process	0.00410307789521319
GO:0019318	hexose metabolic process	0.0065005020284588
GO:0005996	monosaccharide metabolic process	0.0065005020284588
GO:0019695	choline metabolic process	0.0065005020284588
GO:0042439	ethanolamine and derivative metabolic process	0.0114689602854353
GO:0009374	biotin binding	0.0114689602854353
GO:0032787	monocarboxylic acid metabolic process	0.013096251318891
GO:0005743	mitochondrial inner membrane	0.0142120590508497
GO:0019866	organelle inner membrane	0.0142120590508497
GO:0031966	mitochondrial membrane	0.0142120590508497
GO:0044262	cellular carbohydrate metabolic process	0.0142120590508497
GO:0019217	regulation of fatty acid metabolic process	0.0142120590508497
GO:0016885	ligase activity, forming carbon-carbon bonds	0.0142120590508497
GO:0005740	mitochondrial envelope	0.0148516707081126
GO:0017153	sodium:dicarboxylate symporter activity	0.0149912985343832
GO:0006835	dicarboxylic acid transport	0.0173968011642717
GO:0005310	dicarboxylic acid transmembrane transporter activity	0.0173968011642717
GO:0044429	mitochondrial part	0.0177160223997982
GO:0005975	carbohydrate metabolic process	0.0205855343660068
GO:0031975	envelope	0.0224742366795592
GO:0031967	organelle envelope	0.0224742366795592
GO:0006094	gluconeogenesis	0.0250743263206327
GO:0015296	anion:cation symporter activity	0.0256832636280242
GO:0005343	organic acid:sodium symporter activity	0.0256832636280242
GO:0019216	regulation of lipid metabolic process	0.0256832636280242
GO:0006090	pyruvate metabolic process	0.0276135025934446
GO:0019319	hexose biosynthetic process	0.0294410289118389
GO:0042401	biogenic amine biosynthetic process	0.0296530734806422
GO:0046165	alcohol biosynthetic process	0.0296530734806422
GO:0046364	monosaccharide biosynthetic process	0.0296530734806422
GO:0044255	cellular lipid metabolic process	0.030747846169631
GO:0042398	amino acid derivative biosynthetic process	0.0311821039025154
GO:0031090	organelle membrane	0.0311821039025154
GO:0006629	lipid metabolic process	0.0376562959052965
GO:0015370	solute:sodium symporter activity	0.0422184080370688
GO:0003707	steroid hormone receptor activity	0.0485086249414863
GO:0004879	ligand-dependent nuclear receptor activity	0.0485086249414863

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
abdomen element	4.58e-19	49
abdominal segment element	4.58e-19	49
abdominal segment of trunk	4.58e-19	49
abdomen	4.58e-19	49
liver	3.02e-17	22
epithelial sac	3.02e-17	22
digestive gland	3.02e-17	22
epithelium of foregut-midgut junction	3.02e-17	22
anatomical boundary	3.02e-17	22
hepatobiliary system	3.02e-17	22
foregut-midgut junction	3.02e-17	22
hepatic diverticulum	3.02e-17	22
liver primordium	3.02e-17	22
septum transversum	3.02e-17	22
liver bud	3.02e-17	22
digestive tract diverticulum	4.01e-16	23
sac	4.01e-16	23
exocrine gland	2.29e-15	25
exocrine system	2.29e-15	25
subdivision of trunk	2.00e-13	66
mesenchyme	6.33e-12	61
entire embryonic mesenchyme	6.33e-12	61
trunk region element	3.62e-10	79
trunk mesenchyme	2.76e-09	45
trunk	2.46e-07	90

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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