MCL coexpression mm9:875

Phase1 CAGE Peaks

	Short description
Mm9::chr10:79251669..79251729,-	p1@Prss57
Mm9::chr14:30835936..30835962,+	p7@Chdh
Mm9::chr2:150396108..150396117,+	p4@Cst7
Mm9::chr2:150396145..150396156,+	p2@Cst7
Mm9::chr2:150396163..150396219,+	p1@Cst7
Mm9::chr2:150396232..150396241,+	p3@Cst7
Mm9::chr2:71176256..71176310,-	p@chr2:71176256..71176310 -
Mm9::chr9:114690908..114690917,-	p4@Cmtm7

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:0031456	glycine betaine biosynthetic process	0.0020270640442667
GO:0008812	choline dehydrogenase activity	0.0020270640442667
GO:0031455	glycine betaine metabolic process	0.0020270640442667
GO:0019285	glycine betaine biosynthetic process from choline	0.0020270640442667
GO:0006577	betaine metabolic process	0.0020270640442667
GO:0006578	betaine biosynthetic process	0.0020270640442667
GO:0019695	choline metabolic process	0.00347477654474607
GO:0042439	ethanolamine and derivative metabolic process	0.00608019263082758
GO:0042401	biogenic amine biosynthetic process	0.0309130210236443
GO:0042398	amino acid derivative biosynthetic process	0.0309130210236443
GO:0004869	cysteine protease inhibitor activity	0.0309130210236443

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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