Coexpression cluster:C1255

Full id: C1255_cerebellum_postcentral_brain_paracentral_frontal_temporal_pons

Phase1 CAGE Peaks

Hg19::chr1:1950743..1950748,+	p3@GABRD
Hg19::chr20:10273831..10273842,-	p@chr20:10273831..10273842 -
Hg19::chr20:10286834..10286851,-	p1@CU679782
Hg19::chr20:10287450..10287493,-	p@chr20:10287450..10287493 -
Hg19::chr20:10287525..10287552,-	p@chr20:10287525..10287552 -
Hg19::chr3:184103946..184103949,+	p@chr3:184103946..184103949 +
Hg19::chr7:100244171..100244173,-	p@chr7:100244171..100244173 -

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:0004890	GABA-A receptor activity	0.0185673269389271
GO:0016917	GABA receptor activity	0.0185673269389271
GO:0043168	anion binding	0.0185673269389271
GO:0031404	chloride ion binding	0.0185673269389271
GO:0005254	chloride channel activity	0.0185673269389271
GO:0005253	anion channel activity	0.0185673269389271
GO:0005230	extracellular ligand-gated ion channel activity	0.0185673269389271
GO:0030594	neurotransmitter receptor activity	0.0185673269389271
GO:0042165	neurotransmitter binding	0.0185673269389271
GO:0045211	postsynaptic membrane	0.0185673269389271
GO:0044456	synapse part	0.0185673269389271
GO:0015276	ligand-gated ion channel activity	0.0185673269389271
GO:0022834	ligand-gated channel activity	0.0185673269389271
GO:0008509	anion transmembrane transporter activity	0.0219718759987216
GO:0007268	synaptic transmission	0.0284548059185996
GO:0019226	transmission of nerve impulse	0.0303558813140233
GO:0030054	cell junction	0.0371413136077462
GO:0022836	gated channel activity	0.0412921752554391
GO:0007267	cell-cell signaling	0.044665939725298
GO:0005216	ion channel activity	0.044665939725298
GO:0022838	substrate specific channel activity	0.044665939725298
GO:0015267	channel activity	0.044665939725298
GO:0022803	passive transmembrane transporter activity	0.044665939725298

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.