MCL coexpression mm9:2285

Phase1 CAGE Peaks

	Short description
Mm9::chr1:137155026..137155042,-	p1@Elf3
Mm9::chr2:132771764..132771778,-	p3@Fermt1
Mm9::chr2:132771788..132771802,-	p2@Fermt1
Mm9::chr2:132771819..132771830,-	p10@Fermt1

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:0007184	SMAD protein nuclear translocation	0.0103613104695119
GO:0007182	common-partner SMAD protein phosphorylation	0.0103613104695119
GO:0000060	protein import into nucleus, translocation	0.0103613104695119
GO:0051016	barbed-end actin filament capping	0.0103613104695119
GO:0051693	actin filament capping	0.0103613104695119
GO:0030835	negative regulation of actin filament depolymerization	0.0103613104695119
GO:0030834	regulation of actin filament depolymerization	0.0103613104695119
GO:0030042	actin filament depolymerization	0.0103613104695119
GO:0008064	regulation of actin polymerization and/or depolymerization	0.0103613104695119
GO:0051261	protein depolymerization	0.0103613104695119
GO:0032535	regulation of cellular component size	0.0103613104695119
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.0103613104695119
GO:0030832	regulation of actin filament length	0.0103613104695119
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.0103613104695119
GO:0033043	regulation of organelle organization and biogenesis	0.0103613104695119
GO:0051129	negative regulation of cellular component organization and biogenesis	0.0103613104695119
GO:0008154	actin polymerization and/or depolymerization	0.0114727313157225
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0124606609567986
GO:0051128	regulation of cellular component organization and biogenesis	0.0132346150534941
GO:0006606	protein import into nucleus	0.0132346150534941
GO:0051170	nuclear import	0.0132346150534941
GO:0017038	protein import	0.0141844678085296
GO:0051248	negative regulation of protein metabolic process	0.0144157363054078
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.0160498730802243
GO:0006913	nucleocytoplasmic transport	0.017440757894382
GO:0051169	nuclear transport	0.017440757894382
GO:0005516	calmodulin binding	0.0193230539474992
GO:0030036	actin cytoskeleton organization and biogenesis	0.0268175094505013
GO:0030029	actin filament-based process	0.027742251155691
GO:0006605	protein targeting	0.0305557077375409
GO:0051246	regulation of protein metabolic process	0.0361761124552217
GO:0003779	actin binding	0.0368740754944393
GO:0007167	enzyme linked receptor protein signaling pathway	0.0393027962194675
GO:0009892	negative regulation of metabolic process	0.0465301202933373
GO:0008092	cytoskeletal protein binding	0.0465301202933373

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><br>

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Cell Type

Ontology term	p-value	n
intestinal epithelial cell	1.89e-07	9
epithelial cell of alimentary canal	1.89e-07	9

Uber Anatomy

Ontology term	p-value	n
intestine	1.45e-22	31
gastrointestinal system	2.02e-22	47
mucosa	6.84e-12	15
intestinal mucosa	1.98e-10	13
anatomical wall	1.98e-10	13
wall of intestine	1.98e-10	13
gastrointestinal system mucosa	1.98e-10	13
digestive system	1.57e-08	116
digestive tract	1.57e-08	116
primitive gut	1.57e-08	116
endoderm-derived structure	2.22e-08	118
endoderm	2.22e-08	118
presumptive endoderm	2.22e-08	118
subdivision of digestive tract	1.16e-07	114
epithelium of mucosa	1.89e-07	9
gastrointestinal system epithelium	1.89e-07	9
intestinal epithelium	1.89e-07	9

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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