Coexpression cluster:C3750

Full id: C3750_smooth_bladder_Adipocyte_Mesenchymal_aorta_uterus_esophagus

Phase1 CAGE Peaks

Hg19::chr19:11650793..11650806,+	p@chr19:11650793..11650806 +
Hg19::chr20:35169914..35169941,+	p1@MYL9
Hg19::chr8:41986816..41986825,-	p1@ENST00000520355

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:0005859	muscle myosin complex	0.0105086541858001
GO:0016460	myosin II complex	0.0105086541858001
GO:0006937	regulation of muscle contraction	0.0105086541858001
GO:0008307	structural constituent of muscle	0.0105086541858001
GO:0044449	contractile fiber part	0.0106754582204953
GO:0043292	contractile fiber	0.0106754582204953
GO:0016459	myosin complex	0.0152983128963348
GO:0003012	muscle system process	0.0183484438164763
GO:0006936	muscle contraction	0.0183484438164763
GO:0051239	regulation of multicellular organismal process	0.0269312696017041
GO:0015629	actin cytoskeleton	0.0269312696017041

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
fibroblast	4.69e-10	76
smooth muscle cell	9.04e-09	43
smooth muscle myoblast	9.04e-09	43
muscle precursor cell	1.75e-07	58
myoblast	1.75e-07	58
multi-potent skeletal muscle stem cell	1.75e-07	58
muscle cell	8.09e-07	55
contractile cell	9.75e-07	59

Uber Anatomy

Ontology term	p-value	n
mesenchyme	7.07e-10	160
entire embryonic mesenchyme	7.07e-10	160
muscle tissue	4.02e-09	64
musculature	4.02e-09	64
musculature of body	4.02e-09	64
trunk mesenchyme	9.47e-09	122
skeletal muscle tissue	4.17e-08	62
striated muscle tissue	4.17e-08	62
myotome	4.17e-08	62
organism subdivision	2.01e-07	264
dense mesenchyme tissue	2.91e-07	73
primary circulatory organ	5.77e-07	27
multi-cellular organism	6.79e-07	656
paraxial mesoderm	7.94e-07	72
presumptive paraxial mesoderm	7.94e-07	72

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)
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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.