Coexpression cluster:C605

Full id: C605_hepatic_normal_osteoclastoma_tenocyte_neurofibroma_Ewing_mesothelioma

Phase1 CAGE Peaks

Hg19::chr3:120113800..120113812,-	p14@FSTL1
Hg19::chr3:120114219..120114235,-	p2@FSTL1
Hg19::chr3:120114674..120114689,-	p3@MIR198
Hg19::chr3:120114721..120114737,-	p1@MIR198
Hg19::chr3:120114861..120114881,-	p2@MIR198
Hg19::chr3:120115113..120115129,-	p5@FSTL1
Hg19::chr3:120115138..120115175,-	p9@FSTL1
Hg19::chr3:120115192..120115245,-	p3@FSTL1
Hg19::chr3:120115609..120115624,-	p@chr3:120115609..120115624 -
Hg19::chr3:120115780..120115817,+	p@chr3:120115780..120115817 +
Hg19::chr3:120121735..120121755,-	p@chr3:120121735..120121755 -
Hg19::chr3:120122172..120122207,-	p11@FSTL1
Hg19::chr3:120128408..120128463,-	p@chr3:120128408..120128463 -
Hg19::chr3:120128496..120128516,-	p@chr3:120128496..120128516 -
Hg19::chr3:120169828..120169850,-	p1@FSTL1

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:0008201	heparin binding	0.0102805251383492
GO:0005539	glycosaminoglycan binding	0.0102805251383492
GO:0030247	polysaccharide binding	0.0102805251383492
GO:0001871	pattern binding	0.0102805251383492
GO:0030246	carbohydrate binding	0.0284940539267632
GO:0005615	extracellular space	0.0284940539267632
GO:0044421	extracellular region part	0.0420934887554456

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	8.85e-21	76
mesodermal cell	8.34e-13	121
muscle precursor cell	1.50e-12	58
myoblast	1.50e-12	58
multi-potent skeletal muscle stem cell	1.50e-12	58
non-terminally differentiated cell	2.12e-12	106
muscle cell	1.96e-11	55
smooth muscle cell	1.16e-10	43
smooth muscle myoblast	1.16e-10	43
electrically responsive cell	1.53e-10	61
electrically active cell	1.53e-10	61
contractile cell	2.50e-10	59
stromal cell	1.66e-09	28
preadipocyte	6.74e-09	12
vascular associated smooth muscle cell	1.05e-08	32
skin fibroblast	1.25e-08	23
mesothelial cell	2.98e-07	19
multi fate stem cell	4.95e-07	427
somatic cell	9.27e-07	588

Uber Anatomy

Ontology term	p-value	n
skeletal muscle tissue	2.49e-12	62
striated muscle tissue	2.49e-12	62
myotome	2.49e-12	62
muscle tissue	4.25e-12	64
musculature	4.25e-12	64
musculature of body	4.25e-12	64
dense mesenchyme tissue	1.82e-11	73
somite	2.37e-11	71
presomitic mesoderm	2.37e-11	71
presumptive segmental plate	2.37e-11	71
dermomyotome	2.37e-11	71
trunk paraxial mesoderm	2.37e-11	71
multilaminar epithelium	3.98e-11	83
paraxial mesoderm	6.37e-11	72
presumptive paraxial mesoderm	6.37e-11	72
epithelial vesicle	1.74e-09	78
splanchnic layer of lateral plate mesoderm	1.82e-09	83
vasculature	1.75e-08	78
vascular system	1.75e-08	78
mesenchyme	1.76e-08	160
entire embryonic mesenchyme	1.76e-08	160
trunk mesenchyme	4.30e-08	122
artery	4.69e-08	42
arterial blood vessel	4.69e-08	42
arterial system	4.69e-08	42
organ component layer	2.20e-07	66
circulatory system	6.68e-07	112
epithelial tube open at both ends	9.41e-07	59
blood vessel	9.41e-07	59
blood vasculature	9.41e-07	59
vascular cord	9.41e-07	59

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.