MCL coexpression mm9:1196

Phase1 CAGE Peaks

	Short description
Mm9::chr3:137728133..137728161,+	p@chr3:137728133..137728161 +
Mm9::chr6:112409709..112409743,+	p1@Cav3
Mm9::chr6:112409745..112409752,+	p5@Cav3
Mm9::chr7:149846882..149846893,-	p12@Igf2
Mm9::chr7:149846894..149846945,-	p3@Igf2
Mm9::chr7:149846948..149846963,-	p9@Igf2
Mm9::chr7:149847093..149847111,-	p7@Igf2

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:0051354	negative regulation of oxidoreductase activity	0.00366270264369207
GO:0051001	negative regulation of nitric-oxide synthase activity	0.00366270264369207
GO:0005159	insulin-like growth factor receptor binding	0.00366270264369207
GO:0018445	prothoracicotrophic hormone activity	0.00366270264369207
GO:0050999	regulation of nitric-oxide synthase activity	0.00366270264369207
GO:0031579	lipid raft organization and biogenesis	0.00366270264369207
GO:0051925	regulation of calcium ion transport via voltage-gated calcium channel	0.00366270264369207
GO:0051341	regulation of oxidoreductase activity	0.00480716552389701
GO:0043409	negative regulation of MAPKKK cascade	0.00712133649185093
GO:0051924	regulation of calcium ion transport	0.00823950059692129
GO:0016599	caveolar membrane	0.00823950059692129
GO:0046716	muscle maintenance	0.00823950059692129
GO:0005901	caveola	0.00823950059692129
GO:0030315	T-tubule	0.00823950059692129
GO:0007009	plasma membrane organization and biogenesis	0.0085444331595649
GO:0043269	regulation of ion transport	0.00961196052071523
GO:0042632	cholesterol homeostasis	0.0110661950770426
GO:0055088	lipid homeostasis	0.0110661950770426
GO:0055092	sterol homeostasis	0.0110661950770426
GO:0043408	regulation of MAPKKK cascade	0.0110661950770426
GO:0006641	triacylglycerol metabolic process	0.0110661950770426
GO:0005184	neuropeptide hormone activity	0.0110661950770426
GO:0006639	acylglycerol metabolic process	0.0123685928740176
GO:0046486	glycerolipid metabolic process	0.0123685928740176
GO:0006638	neutral lipid metabolic process	0.0123685928740176
GO:0006662	glycerol ether metabolic process	0.0123685928740176
GO:0042593	glucose homeostasis	0.0123685928740176
GO:0042383	sarcolemma	0.0123685928740176
GO:0033500	carbohydrate homeostasis	0.0123685928740176
GO:0045121	lipid raft	0.0144084586727577
GO:0006469	negative regulation of protein kinase activity	0.0144084586727577
GO:0033673	negative regulation of kinase activity	0.0144084586727577
GO:0051348	negative regulation of transferase activity	0.0147472431754467
GO:0042391	regulation of membrane potential	0.0158184497285886
GO:0043086	negative regulation of catalytic activity	0.0170620003455702
GO:0048513	organ development	0.0170620003455702
GO:0048731	system development	0.0252956453033153
GO:0051049	regulation of transport	0.0282740943699344
GO:0009968	negative regulation of signal transduction	0.0295120490852277
GO:0048856	anatomical structure development	0.0318117007811852
GO:0006816	calcium ion transport	0.0321158751667335
GO:0005179	hormone activity	0.0353633963699973
GO:0000165	MAPKKK cascade	0.0353633963699973
GO:0007275	multicellular organismal development	0.035923362439894
GO:0045859	regulation of protein kinase activity	0.035923362439894
GO:0043549	regulation of kinase activity	0.035923362439894
GO:0015674	di-, tri-valent inorganic cation transport	0.035923362439894
GO:0051338	regulation of transferase activity	0.035923362439894
GO:0055082	cellular chemical homeostasis	0.0372851529850379
GO:0006873	cellular ion homeostasis	0.0372851529850379
GO:0008083	growth factor activity	0.0373021045432671
GO:0007517	muscle development	0.0389795489121627
GO:0050801	ion homeostasis	0.0389795489121627
GO:0010324	membrane invagination	0.0389795489121627
GO:0006897	endocytosis	0.0389795489121627
GO:0048878	chemical homeostasis	0.0471827861399006
GO:0019725	cellular homeostasis	0.0471827861399006
GO:0032502	developmental process	0.0473012205455537
GO:0007243	protein kinase cascade	0.0473012205455537
GO:0016044	membrane organization and biogenesis	0.0494671991631394

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
multi-cellular organism	3.78e-09	333
primary circulatory organ	1.98e-07	18
heart	1.98e-07	18
primitive heart tube	1.98e-07	18
primary heart field	1.98e-07	18
anterior lateral plate mesoderm	1.98e-07	18
heart tube	1.98e-07	18
heart primordium	1.98e-07	18
cardiac mesoderm	1.98e-07	18
cardiogenic plate	1.98e-07	18
heart rudiment	1.98e-07	18

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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