MCL coexpression mm9:886

Phase1 CAGE Peaks

	Short description
Mm9::chr11:105018259..105018270,+	p@chr11:105018259..105018270 +
Mm9::chr11:75263386..75263400,-	p5@Wdr81
Mm9::chr12:92984460..92984529,-	p4@Ston2
Mm9::chr16:12704492..12704509,+	p@chr16:12704492..12704509 +
Mm9::chr16:93365564..93365588,-	p@chr16:93365564..93365588 -
Mm9::chr19:40844025..40844047,-	p@chr19:40844025..40844047 -
Mm9::chr1:158143264..158143294,+	p@chr1:158143264..158143294 +
Mm9::chr1:88209180..88209184,+	p@chr1:88209180..88209184 +

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:0030125	clathrin vesicle coat	0.0152668967658284
GO:0030665	clathrin coated vesicle membrane	0.0152668967658284
GO:0030119	AP-type membrane coat adaptor complex	0.0152668967658284
GO:0030120	vesicle coat	0.0152668967658284
GO:0030131	clathrin adaptor complex	0.0152668967658284
GO:0030662	coated vesicle membrane	0.0152668967658284
GO:0030100	regulation of endocytosis	0.0152668967658284
GO:0030118	clathrin coat	0.0152668967658284
GO:0030659	cytoplasmic vesicle membrane	0.0152668967658284
GO:0044433	cytoplasmic vesicle part	0.0155759432590639
GO:0030117	membrane coat	0.0155759432590639
GO:0048475	coated membrane	0.0155759432590639
GO:0012506	vesicle membrane	0.0155759432590639
GO:0030136	clathrin-coated vesicle	0.0191123181316574
GO:0051049	regulation of transport	0.0196611515915192
GO:0030135	coated vesicle	0.0196611515915192
GO:0006461	protein complex assembly	0.0265870880209861
GO:0008565	protein transporter activity	0.0287258715462298
GO:0010324	membrane invagination	0.0303730893551745
GO:0006897	endocytosis	0.0303730893551745
GO:0016023	cytoplasmic membrane-bound vesicle	0.031885169561168
GO:0031988	membrane-bound vesicle	0.031885169561168
GO:0016044	membrane organization and biogenesis	0.0366300715308264
GO:0031410	cytoplasmic vesicle	0.0413040638209104
GO:0012505	endomembrane system	0.0413040638209104
GO:0031982	vesicle	0.0413040638209104
GO:0065003	macromolecular complex assembly	0.0421848463266313
GO:0022607	cellular component assembly	0.0479099326138169
GO:0006886	intracellular protein transport	0.0480034458199597
GO:0016192	vesicle-mediated transport	0.0483317810770832

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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