Coexpression cluster:C349

Full id: C349_Mesothelial_Fibroblast_Preadipocyte_Ewing_mesenchymal_Skeletal_Smooth

Phase1 CAGE Peaks

Hg19::chr13:38138680..38138703,-	p6@POSTN
Hg19::chr13:38143509..38143522,-	p@chr13:38143509..38143522 -
Hg19::chr13:38143906..38143926,-	p5@POSTN
Hg19::chr13:38143952..38143964,-	p13@POSTN
Hg19::chr13:38144751..38144809,-	p4@POSTN
Hg19::chr13:38145530..38145539,-	p8@POSTN
Hg19::chr13:38145556..38145571,-	p3@POSTN
Hg19::chr13:38145589..38145600,-	p12@POSTN
Hg19::chr13:38148231..38148243,-	p@chr13:38148231..38148243 -
Hg19::chr13:38151913..38151938,-	p1@AK023481
Hg19::chr13:38153005..38153062,-	p@chr13:38153005..38153062 -
Hg19::chr13:38153184..38153228,-	p@chr13:38153184..38153228 -
Hg19::chr13:38153245..38153265,-	p@chr13:38153245..38153265 -
Hg19::chr13:38153407..38153451,-	p@chr13:38153407..38153451 -
Hg19::chr13:38153485..38153498,-	p@chr13:38153485..38153498 -
Hg19::chr13:38154048..38154108,-	p@chr13:38154048..38154108 -
Hg19::chr13:38154109..38154139,-	p@chr13:38154109..38154139 -
Hg19::chr13:38154735..38154791,-	p2@POSTN
Hg19::chr13:38154792..38154807,-	p10@POSTN
Hg19::chr13:38156527..38156539,-	p3@AK297914
Hg19::chr13:38156549..38156595,-	p1@AK297914
Hg19::chr13:38156622..38156656,-	p2@AK297914
Hg19::chr13:38158135..38158197,-	p@chr13:38158135..38158197 -
Hg19::chr13:38158993..38159017,-	p@chr13:38158993..38159017 -
Hg19::chr13:38160326..38160357,-	p@chr13:38160326..38160357 -
Hg19::chr13:38160359..38160428,-	p@chr13:38160359..38160428 -
Hg19::chr13:38161054..38161069,-	p@chr13:38161054..38161069 -
Hg19::chr13:38164537..38164581,-	p@chr13:38164537..38164581 -
Hg19::chr13:38164609..38164645,-	p@chr13:38164609..38164645 -
Hg19::chr13:38166252..38166258,+	p@chr13:38166252..38166258 +
Hg19::chr13:38171411..38171427,-	p@chr13:38171411..38171427 -
Hg19::chr13:38172896..38172911,-	p1@POSTN

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	0.0158880843047215
GO:0005539	glycosaminoglycan binding	0.0158880843047215
GO:0030247	polysaccharide binding	0.0158880843047215
GO:0001871	pattern binding	0.0158880843047215
GO:0001501	skeletal development	0.020917225950783
GO:0005578	proteinaceous extracellular matrix	0.0341709979647104
GO:0030246	carbohydrate binding	0.0341709979647104
GO:0044421	extracellular region part	0.0480395619922289
GO:0022610	biological adhesion	0.0480395619922289
GO:0007155	cell adhesion	0.0480395619922289

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
non-terminally differentiated cell	3.79e-31	180
muscle precursor cell	1.22e-18	57
myoblast	1.22e-18	57
multi-potent skeletal muscle stem cell	1.22e-18	57
muscle cell	2.09e-17	54
electrically responsive cell	1.83e-16	60
electrically active cell	1.83e-16	60
contractile cell	4.69e-16	59
fibroblast	3.70e-15	75
mesodermal cell	4.38e-14	119
smooth muscle cell	8.97e-13	42
smooth muscle myoblast	8.97e-13	42
vascular associated smooth muscle cell	1.90e-10	32
cardiocyte	1.76e-08	16
preadipocyte	2.37e-08	12

Uber Anatomy

Ontology term	p-value	n
muscle tissue	7.67e-20	63
musculature	7.67e-20	63
musculature of body	7.67e-20	63
skeletal muscle tissue	8.14e-20	61
striated muscle tissue	8.14e-20	61
myotome	8.14e-20	61
somite	2.21e-19	83
paraxial mesoderm	2.21e-19	83
presomitic mesoderm	2.21e-19	83
presumptive segmental plate	2.21e-19	83
trunk paraxial mesoderm	2.21e-19	83
presumptive paraxial mesoderm	2.21e-19	83
dermomyotome	5.74e-18	70
splanchnic layer of lateral plate mesoderm	2.76e-16	84
multilaminar epithelium	7.13e-15	82
artery	1.05e-14	42
arterial blood vessel	1.05e-14	42
arterial system	1.05e-14	42
vasculature	8.10e-13	79
vascular system	8.10e-13	79
unilaminar epithelium	9.78e-13	138
circulatory system	2.51e-12	113
trunk mesenchyme	2.61e-12	143
cardiovascular system	5.72e-12	110
systemic artery	9.66e-12	33
systemic arterial system	9.66e-12	33
vessel	1.08e-11	69
blood vessel	1.24e-11	60
epithelial tube open at both ends	1.24e-11	60
blood vasculature	1.24e-11	60
vascular cord	1.24e-11	60
organism subdivision	1.61e-11	365
primary circulatory organ	1.57e-10	27
heart	1.92e-10	24
primitive heart tube	1.92e-10	24
primary heart field	1.92e-10	24
anterior lateral plate mesoderm	1.92e-10	24
heart tube	1.92e-10	24
heart primordium	1.92e-10	24
cardiac mesoderm	1.92e-10	24
cardiogenic plate	1.92e-10	24
heart rudiment	1.92e-10	24
epithelial tube	7.07e-10	118
trunk	1.75e-09	216
multi-cellular organism	5.41e-09	659
cell layer	1.13e-08	312
epithelium	1.37e-08	309
multi-tissue structure	5.19e-08	347
aorta	1.25e-07	21
aortic system	1.25e-07	21
anatomical cluster	7.13e-07	286

Disease

Ontology term	p-value	n
ovarian cancer	9.70e-07	14

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.