Coexpression cluster:C4454

Full id: C4454_Preadipocyte_Chondrocyte_Adipocyte_tenocyte_Ewing_Fibroblast_Smooth

Phase1 CAGE Peaks

Hg19::chr5:122372354..122372440,-	p1@PPIC
Hg19::chr7:32996997..32997094,+	p1@FKBP9
Hg19::chr7:32997098..32997114,+	p2@FKBP9

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:0003755	peptidyl-prolyl cis-trans isomerase activity	0.000114914022548021
GO:0016859	cis-trans isomerase activity	0.000114914022548021
GO:0016853	isomerase activity	0.000796984349929822
GO:0006457	protein folding	0.000796984349929822
GO:0016018	cyclosporin A binding	0.002189877685791
GO:0008144	drug binding	0.00608174002924203
GO:0051082	unfolded protein binding	0.0473062726156019
GO:0042277	peptide binding	0.0473062726156019

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	3.17e-27	180
fibroblast	2.02e-19	75
mesodermal cell	8.11e-13	119
muscle precursor cell	1.68e-11	57
myoblast	1.68e-11	57
multi-potent skeletal muscle stem cell	1.68e-11	57
embryonic cell	1.72e-11	248
contractile cell	1.09e-10	59
muscle cell	1.39e-10	54
smooth muscle cell	1.56e-09	42
smooth muscle myoblast	1.56e-09	42
stromal cell	4.60e-08	27
electrically responsive cell	7.04e-08	60
electrically active cell	7.04e-08	60
preadipocyte	9.50e-08	12
vascular associated smooth muscle cell	1.06e-07	32
fat cell	1.47e-07	15
skin fibroblast	6.26e-07	23

Uber Anatomy

Ontology term	p-value	n
organism subdivision	4.42e-17	365
trunk	1.24e-16	216
multi-cellular organism	1.66e-15	659
trunk mesenchyme	2.64e-14	143
splanchnic layer of lateral plate mesoderm	1.94e-13	84
somite	2.38e-13	83
paraxial mesoderm	2.38e-13	83
presomitic mesoderm	2.38e-13	83
presumptive segmental plate	2.38e-13	83
trunk paraxial mesoderm	2.38e-13	83
presumptive paraxial mesoderm	2.38e-13	83
mesenchyme	2.57e-13	238
entire embryonic mesenchyme	2.57e-13	238
multilaminar epithelium	3.92e-13	82
muscle tissue	3.13e-12	63
musculature	3.13e-12	63
musculature of body	3.13e-12	63
anatomical system	3.86e-12	625
surface structure	3.93e-12	95
skeletal muscle tissue	4.17e-12	61
striated muscle tissue	4.17e-12	61
myotome	4.17e-12	61
dermomyotome	5.89e-12	70
multi-tissue structure	7.73e-12	347
anatomical group	8.11e-12	626
epithelial tube	8.16e-12	118
vasculature	7.22e-11	79
vascular system	7.22e-11	79
unilaminar epithelium	1.79e-10	138
vessel	1.00e-09	69
integument	1.23e-09	45
integumental system	1.23e-09	45
blood vessel	3.18e-09	60
epithelial tube open at both ends	3.18e-09	60
blood vasculature	3.18e-09	60
vascular cord	3.18e-09	60
circulatory system	5.83e-09	113
artery	5.95e-09	42
arterial blood vessel	5.95e-09	42
arterial system	5.95e-09	42
cell layer	6.67e-09	312
epithelium	6.96e-09	309
primary circulatory organ	8.42e-09	27
systemic artery	2.13e-08	33
systemic arterial system	2.13e-08	33
cardiovascular system	2.22e-08	110
heart	3.98e-08	24
primitive heart tube	3.98e-08	24
primary heart field	3.98e-08	24
anterior lateral plate mesoderm	3.98e-08	24
heart tube	3.98e-08	24
heart primordium	3.98e-08	24
cardiac mesoderm	3.98e-08	24
cardiogenic plate	3.98e-08	24
heart rudiment	3.98e-08	24
skin of body	4.21e-08	40
mesoderm	9.61e-08	448
mesoderm-derived structure	9.61e-08	448
presumptive mesoderm	9.61e-08	448
compound organ	3.91e-07	69
anatomical cluster	4.21e-07	286
adipose tissue	6.54e-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.