Coexpression cluster:C720

Full id: C720_Smooth_Fibroblast_Preadipocyte_Sertoli_Ewing_hepatic_Synoviocyte

Phase1 CAGE Peaks

Hg19::chr10:135201174..135201177,+	p@chr10:135201174..135201177 +
Hg19::chr15:48937840..48937844,-	p3@FBN1
Hg19::chr15:48937853..48937881,-	p2@FBN1
Hg19::chr15:48937884..48937933,-	p1@FBN1
Hg19::chr15:48937982..48937988,-	p9@FBN1
Hg19::chr3:112359244..112359263,-	p11@CCDC80
Hg19::chr4:55095975..55095998,+	p9@PDGFRA
Hg19::chr4:55096011..55096052,+	p5@PDGFRA
Hg19::chr4:55098129..55098159,+	p@chr4:55098129..55098159 +
Hg19::chr7:128379449..128379463,+	p2@CALU
Hg19::chr7:128410336..128410348,+	p@chr7:128410336..128410348 +

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:0005018	platelet-derived growth factor alpha-receptor activity	0.00688802543270929
GO:0048407	platelet-derived growth factor binding	0.00688802543270929
GO:0005017	platelet-derived growth factor receptor activity	0.0137748343177302
GO:0001527	microfibril	0.0236046189169336
GO:0030539	male genitalia development	0.0236046189169336
GO:0043205	fibril	0.0236046189169336
GO:0048806	genitalia development	0.0236046189169336
GO:0042475	odontogenesis of dentine-containing teeth	0.0325256475399368
GO:0005021	vascular endothelial growth factor receptor activity	0.0325256475399368
GO:0042476	odontogenesis	0.0325256475399368
GO:0046546	development of primary male sexual characteristics	0.0325256475399368
GO:0046661	male sex differentiation	0.0366858802823338
GO:0030324	lung development	0.0421626850121848
GO:0030323	respiratory tube development	0.0421626850121848
GO:0030198	extracellular matrix organization and biogenesis	0.0421626850121848
GO:0048513	organ development	0.0469735600688954
GO:0045137	development of primary sexual characteristics	0.0469735600688954
GO:0005788	endoplasmic reticulum lumen	0.0469735600688954
GO:0005604	basement membrane	0.0469735600688954
GO:0007548	sex differentiation	0.0469735600688954
GO:0048770	pigment granule	0.0469735600688954
GO:0042470	melanosome	0.0469735600688954
GO:0043062	extracellular structure organization and biogenesis	0.0469735600688954
GO:0003006	reproductive developmental process	0.0469735600688954
GO:0005509	calcium ion binding	0.0469735600688954
GO:0019838	growth factor binding	0.0469735600688954
GO:0007507	heart development	0.0477644719140857

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
non-terminally differentiated cell	3.01e-44	180
fibroblast	1.11e-25	75
muscle precursor cell	2.70e-19	57
myoblast	2.70e-19	57
multi-potent skeletal muscle stem cell	2.70e-19	57
muscle cell	3.27e-18	54
contractile cell	7.24e-18	59
mesodermal cell	3.02e-17	119
electrically responsive cell	4.37e-15	60
electrically active cell	4.37e-15	60
smooth muscle cell	6.76e-15	42
smooth muscle myoblast	6.76e-15	42
vascular associated smooth muscle cell	1.88e-12	32
skin fibroblast	3.07e-11	23
cardiocyte	9.41e-08	16
preadipocyte	1.36e-07	12
fat cell	6.76e-07	15

Uber Anatomy

Ontology term	p-value	n
somite	5.03e-23	83
paraxial mesoderm	5.03e-23	83
presomitic mesoderm	5.03e-23	83
presumptive segmental plate	5.03e-23	83
trunk paraxial mesoderm	5.03e-23	83
presumptive paraxial mesoderm	5.03e-23	83
dermomyotome	1.87e-20	70
splanchnic layer of lateral plate mesoderm	4.16e-19	84
skeletal muscle tissue	4.68e-19	61
striated muscle tissue	4.68e-19	61
myotome	4.68e-19	61
muscle tissue	6.61e-19	63
musculature	6.61e-19	63
musculature of body	6.61e-19	63
multilaminar epithelium	9.67e-18	82
trunk mesenchyme	6.97e-17	143
vasculature	1.14e-15	79
vascular system	1.14e-15	79
organism subdivision	4.82e-14	365
blood vessel	9.95e-13	60
epithelial tube open at both ends	9.95e-13	60
blood vasculature	9.95e-13	60
vascular cord	9.95e-13	60
vessel	1.52e-12	69
artery	3.06e-12	42
arterial blood vessel	3.06e-12	42
arterial system	3.06e-12	42
circulatory system	3.20e-12	113
epithelial tube	3.43e-12	118
cardiovascular system	4.61e-12	110
unilaminar epithelium	8.55e-12	138
trunk	2.00e-11	216
systemic artery	4.20e-11	33
systemic arterial system	4.20e-11	33
multi-tissue structure	1.40e-10	347
cell layer	1.59e-09	312
anatomical cluster	2.09e-09	286
epithelium	4.52e-09	309
mesenchyme	4.72e-09	238
entire embryonic mesenchyme	4.72e-09	238
integument	5.38e-09	45
integumental system	5.38e-09	45
heart	8.22e-09	24
primitive heart tube	8.22e-09	24
primary heart field	8.22e-09	24
anterior lateral plate mesoderm	8.22e-09	24
heart tube	8.22e-09	24
heart primordium	8.22e-09	24
cardiac mesoderm	8.22e-09	24
cardiogenic plate	8.22e-09	24
heart rudiment	8.22e-09	24
primary circulatory organ	1.16e-08	27
multi-cellular organism	2.04e-08	659
surface structure	2.13e-08	95
organ component layer	8.72e-08	57
skin of body	1.54e-07	40
adipose tissue	7.88e-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.