Coexpression cluster:C2435

Full id: C2435_kidney_colon_small_temporal_duodenum_Hepatocyte_Intestinal

Phase1 CAGE Peaks

Hg19::chr17:72759260..72759268,+	p10@SLC9A3R1
Hg19::chr21:45509347..45509382,+	p6@TRAPPC10
Hg19::chr3:171395628..171395647,-	p8@PLD1
Hg19::chr9:27005686..27005695,-	p3@LRRC19

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:0031690	adrenergic receptor binding	0.00264916256568538
GO:0031698	beta-2 adrenergic receptor binding	0.00264916256568538
GO:0022898	regulation of transmembrane transporter activity	0.00264916256568538
GO:0032409	regulation of transporter activity	0.00264916256568538
GO:0032415	regulation of sodium:hydrogen antiporter activity	0.00264916256568538
GO:0032412	regulation of ion transmembrane transporter activity	0.00264916256568538
GO:0030643	cellular phosphate ion homeostasis	0.00366763934708793
GO:0055062	phosphate ion homeostasis	0.00366763934708793
GO:0055061	di-, tri-valent inorganic anion homeostasis	0.00366763934708793
GO:0030319	cellular di-, tri-valent inorganic anion homeostasis	0.00366763934708793
GO:0055081	anion homeostasis	0.00366763934708793
GO:0030002	cellular anion homeostasis	0.00366763934708793
GO:0004630	phospholipase D activity	0.00366763934708793
GO:0005770	late endosome	0.0289098216557345
GO:0016324	apical plasma membrane	0.0359586572579575
GO:0045177	apical part of cell	0.0426122033097928
GO:0001664	G-protein-coupled receptor binding	0.0481425629078731
GO:0004620	phospholipase activity	0.0481425629078731
GO:0008081	phosphoric diester hydrolase activity	0.0481425629078731
GO:0016298	lipase activity	0.0481425629078731
GO:0042330	taxis	0.0481425629078731
GO:0006935	chemotaxis	0.0481425629078731
GO:0016055	Wnt receptor signaling pathway	0.0481425629078731
GO:0016042	lipid catabolic process	0.0481425629078731

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
B cell	1.50e-12	14
lymphocyte of B lineage	4.15e-08	24
pro-B cell	4.15e-08	24
lymphoid lineage restricted progenitor cell	8.96e-08	52
lymphocyte	1.48e-07	53
common lymphoid progenitor	1.48e-07	53

Uber Anatomy

Ontology term	p-value	n
immune organ	8.84e-07	26

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.