MCL coexpression mm9:2112

Phase1 CAGE Peaks

	Short description
Mm9::chr14:56097590..56097604,+	p3@Dhrs4
Mm9::chr18:34569069..34569112,+	p1@Pkd2l2
Mm9::chr2:10001781..10001793,-	p3@Atp5c1
Mm9::chr2:102913921..102913945,+	p2@Apip

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:0005753	mitochondrial proton-transporting ATP synthase complex	0.0335122051150373
GO:0001758	retinal dehydrogenase activity	0.0335122051150373
GO:0004090	carbonyl reductase (NADPH) activity	0.0335122051150373
GO:0043288	apocarotenoid metabolic process	0.0335122051150373
GO:0042574	retinal metabolic process	0.0335122051150373
GO:0045261	proton-transporting ATP synthase complex, catalytic core F(1)	0.0335122051150373
GO:0033178	proton-transporting two-sector ATPase complex, catalytic domain	0.0335122051150373
GO:0016101	diterpenoid metabolic process	0.043528192063967
GO:0001523	retinoid metabolic process	0.043528192063967
GO:0006721	terpenoid metabolic process	0.043528192063967
GO:0006776	vitamin A metabolic process	0.043528192063967
GO:0045259	proton-transporting ATP synthase complex	0.043528192063967
GO:0006775	fat-soluble vitamin metabolic process	0.043528192063967
GO:0006720	isoprenoid metabolic process	0.043528192063967
GO:0016620	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	0.043528192063967
GO:0015075	ion transmembrane transporter activity	0.043528192063967
GO:0015985	energy coupled proton transport, down electrochemical gradient	0.043528192063967
GO:0015986	ATP synthesis coupled proton transport	0.043528192063967
GO:0006754	ATP biosynthetic process	0.043528192063967
GO:0006753	nucleoside phosphate metabolic process	0.043528192063967
GO:0046933	hydrogen ion transporting ATP synthase activity, rotational mechanism	0.043528192063967
GO:0016469	proton-transporting two-sector ATPase complex	0.043528192063967
GO:0046961	hydrogen ion transporting ATPase activity, rotational mechanism	0.043528192063967
GO:0006811	ion transport	0.043528192063967
GO:0016903	oxidoreductase activity, acting on the aldehyde or oxo group of donors	0.043528192063967
GO:0022891	substrate-specific transmembrane transporter activity	0.043528192063967
GO:0046034	ATP metabolic process	0.043528192063967
GO:0019748	secondary metabolic process	0.043528192063967
GO:0044455	mitochondrial membrane part	0.043528192063967
GO:0009145	purine nucleoside triphosphate biosynthetic process	0.043528192063967
GO:0009206	purine ribonucleoside triphosphate biosynthetic process	0.043528192063967
GO:0009201	ribonucleoside triphosphate biosynthetic process	0.043528192063967
GO:0019829	cation-transporting ATPase activity	0.043528192063967
GO:0009142	nucleoside triphosphate biosynthetic process	0.043528192063967
GO:0009205	purine ribonucleoside triphosphate metabolic process	0.043528192063967
GO:0009199	ribonucleoside triphosphate metabolic process	0.043528192063967
GO:0006119	oxidative phosphorylation	0.043528192063967
GO:0009144	purine nucleoside triphosphate metabolic process	0.043528192063967
GO:0015992	proton transport	0.043528192063967
GO:0022857	transmembrane transporter activity	0.043528192063967
GO:0006752	group transfer coenzyme metabolic process	0.043528192063967
GO:0009141	nucleoside triphosphate metabolic process	0.043528192063967
GO:0009152	purine ribonucleotide biosynthetic process	0.043528192063967
GO:0006818	hydrogen transport	0.043528192063967
GO:0009260	ribonucleotide biosynthetic process	0.043528192063967
GO:0006766	vitamin metabolic process	0.043528192063967
GO:0022892	substrate-specific transporter activity	0.043528192063967
GO:0009150	purine ribonucleotide metabolic process	0.043528192063967
GO:0006164	purine nucleotide biosynthetic process	0.043528192063967
GO:0005739	mitochondrion	0.043528192063967
GO:0009259	ribonucleotide metabolic process	0.0457595193689358
GO:0006163	purine nucleotide metabolic process	0.0474284687075218

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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