Coexpression cluster:C3282

Full id: C3282_Mesenchymal_Renal_Endothelial_Hepatic_Fibroblast_Pericytes_Trabecular

Phase1 CAGE Peaks

Hg19::chr12:48213650..48213695,-	p1@HDAC7
Hg19::chr19:54984354..54984463,-	p1@CDC42EP5
Hg19::chr1:26126670..26126721,+	p1@SEPN1

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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No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0031269	pseudopodium formation	0.00423847294024064
GO:0031268	pseudopodium organization and biogenesis	0.00423847294024064
GO:0031274	positive regulation of pseudopodium formation	0.00423847294024064
GO:0031272	regulation of pseudopodium formation	0.00423847294024064
GO:0017049	GTP-Rho binding	0.00423847294024064
GO:0030838	positive regulation of actin filament polymerization	0.00423847294024064
GO:0031344	regulation of cell projection organization and biogenesis	0.00423847294024064
GO:0031346	positive regulation of cell projection organization and biogenesis	0.00423847294024064
GO:0030833	regulation of actin filament polymerization	0.0119282334752735
GO:0030041	actin filament polymerization	0.0141190928522875
GO:0017048	Rho GTPase binding	0.0141190928522875
GO:0022603	regulation of anatomical structure morphogenesis	0.0141190928522875
GO:0008360	regulation of cell shape	0.0141190928522875
GO:0022604	regulation of cell morphogenesis	0.0141190928522875
GO:0008064	regulation of actin polymerization and/or depolymerization	0.0141190928522875
GO:0030832	regulation of actin filament length	0.0141190928522875
GO:0032535	regulation of cellular component size	0.0141190928522875
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.0141190928522875
GO:0030031	cell projection biogenesis	0.0141190928522875
GO:0008430	selenium binding	0.0141190928522875
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.0143745331790643
GO:0033043	regulation of organelle organization and biogenesis	0.0143745331790643
GO:0008154	actin polymerization and/or depolymerization	0.0149760890815889
GO:0007254	JNK cascade	0.0152923045578563
GO:0031098	stress-activated protein kinase signaling pathway	0.0153575003160227
GO:0017016	Ras GTPase binding	0.0167190430585973
GO:0031267	small GTPase binding	0.017135774408785
GO:0051247	positive regulation of protein metabolic process	0.017135774408785
GO:0051020	GTPase binding	0.0182047674899782
GO:0051258	protein polymerization	0.0182047674899782
GO:0051128	regulation of cellular component organization and biogenesis	0.0182047674899782
GO:0000165	MAPKKK cascade	0.0264343064197099
GO:0007266	Rho protein signal transduction	0.0319306848958582
GO:0032990	cell part morphogenesis	0.0319306848958582
GO:0030030	cell projection organization and biogenesis	0.0319306848958582
GO:0048858	cell projection morphogenesis	0.0319306848958582
GO:0050793	regulation of developmental process	0.0359240784781714
GO:0030036	actin cytoskeleton organization and biogenesis	0.0366031238167997
GO:0030029	actin filament-based process	0.0375344561401569
GO:0019899	enzyme binding	0.0429014915697675

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

Overrepresented TFBS (DNA) motifs on this co-expression cluster<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)
{{{tfbs_overrepresentation_jaspar}}}

ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

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No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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This analysis result is provided for C0 - C305 clusters.