Coexpression cluster:C485

Full id: C485_Pericytes_retina_cerebral_Dendritic_testis_corpus_spinal

Phase1 CAGE Peaks

Hg19::chr9:139871948..139871964,+	p1@PTGDS
Hg19::chr9:139873437..139873444,+	p14@PTGDS
Hg19::chr9:139873445..139873481,+	p2@PTGDS
Hg19::chr9:139873495..139873543,+	p3@PTGDS
Hg19::chr9:139873544..139873562,+	p9@PTGDS
Hg19::chr9:139873670..139873734,+	p@chr9:139873670..139873734 +
Hg19::chr9:139874396..139874457,+	p4@PTGDS
Hg19::chr9:139874436..139874463,-	p@chr9:139874436..139874463 -
Hg19::chr9:139874466..139874495,+	p8@PTGDS
Hg19::chr9:139874472..139874481,-	p@chr9:139874472..139874481 -
Hg19::chr9:139874503..139874516,-	p@chr9:139874503..139874516 -
Hg19::chr9:139874630..139874648,+	p11@PTGDS
Hg19::chr9:139874657..139874682,-	p@chr9:139874657..139874682 -
Hg19::chr9:139874662..139874682,+	p10@PTGDS
Hg19::chr9:139874683..139874714,+	p5@PTGDS
Hg19::chr9:139874710..139874744,-	p@chr9:139874710..139874744 -
Hg19::chr9:139875304..139875308,-	p@chr9:139875304..139875308 -
Hg19::chr9:139876037..139876053,+	p3@LCNL1
Hg19::chr9:139876097..139876149,-	p@chr9:139876097..139876149 -
Hg19::chr9:139876112..139876142,+	p2@LCNL1

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:0022410	circadian sleep/wake cycle process	0.000485694101024373
GO:0042749	regulation of circadian sleep/wake cycle	0.000485694101024373
GO:0045187	regulation of circadian sleep/wake cycle, sleep	0.000485694101024373
GO:0050802	circadian sleep/wake cycle, sleep	0.000485694101024373
GO:0042745	circadian sleep/wake cycle	0.000647592134699163
GO:0004667	prostaglandin-D synthase activity	0.000647592134699163
GO:0048512	circadian behavior	0.000647592134699163
GO:0007622	rhythmic behavior	0.000647592134699163
GO:0042752	regulation of circadian rhythm	0.000647592134699163
GO:0030431	sleep	0.000971388202048745
GO:0046457	prostanoid biosynthetic process	0.00161898033674791
GO:0001516	prostaglandin biosynthetic process	0.00161898033674791
GO:0005791	rough endoplasmic reticulum	0.00194277640409749
GO:0006693	prostaglandin metabolic process	0.00194277640409749
GO:0006692	prostanoid metabolic process	0.00194277640409749
GO:0019840	isoprenoid binding	0.00194277640409749
GO:0005501	retinoid binding	0.00194277640409749
GO:0007623	circadian rhythm	0.00313002865104596
GO:0046456	icosanoid biosynthetic process	0.00337429585974827
GO:0006690	icosanoid metabolic process	0.00485694101024373
GO:0016860	intramolecular oxidoreductase activity	0.00638340818489176
GO:0006633	fatty acid biosynthetic process	0.00644648534086895
GO:0016053	organic acid biosynthetic process	0.00671876839750383
GO:0046394	carboxylic acid biosynthetic process	0.00671876839750383
GO:0031965	nuclear membrane	0.0117343694807488
GO:0006631	fatty acid metabolic process	0.0139592082368486
GO:0005635	nuclear envelope	0.0139592082368486
GO:0051239	regulation of multicellular organismal process	0.0190392087601554
GO:0032787	monocarboxylic acid metabolic process	0.0190392087601554
GO:0007610	behavior	0.0190392087601554
GO:0016853	isomerase activity	0.0196784448673101
GO:0008610	lipid biosynthetic process	0.0202170169551395
GO:0031967	organelle envelope	0.0356556610634363
GO:0031975	envelope	0.0356556610634363
GO:0005794	Golgi apparatus	0.0385779885956502
GO:0044255	cellular lipid metabolic process	0.0407983044860473
GO:0019752	carboxylic acid metabolic process	0.0407983044860473
GO:0006082	organic acid metabolic process	0.0407983044860473
GO:0005783	endoplasmic reticulum	0.0451321903105725
GO:0006629	lipid metabolic process	0.0459466619569057
GO:0012505	endomembrane system	0.0487115644734688

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.