Coexpression cluster:C2448

Full id: C2448_lung_heart_adipose_uterus_spleen_penis_diaphragm

Phase1 CAGE Peaks

Hg19::chr17:8213590..8213603,+	p4@ARHGEF15
Hg19::chr19:34756467..34756506,+	p2@KIAA0355
Hg19::chr9:130524452..130524471,-	p12@SH2D3C
Hg19::chr9:130524481..130524502,-	p7@SH2D3C

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:0005085	guanyl-nucleotide exchange factor activity	0.00288634203040242
GO:0030695	GTPase regulator activity	0.00741965680807329
GO:0007264	small GTPase mediated signal transduction	0.00771334966124877
GO:0005070	SH3/SH2 adaptor activity	0.0174971520527603
GO:0007242	intracellular signaling cascade	0.0174971520527603
GO:0060090	molecular adaptor activity	0.0174971520527603
GO:0007254	JNK cascade	0.0174971520527603
GO:0031098	stress-activated protein kinase signaling pathway	0.0174971520527603
GO:0030674	protein binding, bridging	0.0208065528489527
GO:0000165	MAPKKK cascade	0.0260896311395252
GO:0005089	Rho guanyl-nucleotide exchange factor activity	0.0260896311395252
GO:0035023	regulation of Rho protein signal transduction	0.0260896311395252
GO:0005088	Ras guanyl-nucleotide exchange factor activity	0.0260896311395252
GO:0007266	Rho protein signal transduction	0.0275936887220312
GO:0005096	GTPase activator activity	0.042169007212996
GO:0046578	regulation of Ras protein signal transduction	0.042169007212996
GO:0007243	protein kinase cascade	0.042169007212996
GO:0007165	signal transduction	0.042169007212996
GO:0007265	Ras protein signal transduction	0.042169007212996
GO:0008047	enzyme activator activity	0.042169007212996
GO:0007154	cell communication	0.042169007212996
GO:0005083	small GTPase regulator activity	0.042169007212996
GO:0051056	regulation of small GTPase mediated signal transduction	0.042169007212996

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.