Coexpression cluster:C3167

Full id: C3167_Alveolar_embryonic_Smooth_Mesenchymal_Pericytes_Hepatic_Endothelial

Phase1 CAGE Peaks

Hg19::chr11:60609519..60609536,+	p3@CCDC86
Hg19::chr11:60609537..60609567,+	p2@CCDC86
Hg19::chr11:60609568..60609594,+	p1@CCDC86

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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No GOStat results

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
embryonic cell	3.54e-27	248
animal cell	4.60e-25	679
eukaryotic cell	4.60e-25	679
epithelial cell	3.53e-24	254
mesodermal cell	4.89e-20	119
non-terminally differentiated cell	4.93e-15	180
native cell	7.15e-14	722
contractile cell	9.01e-14	59
muscle precursor cell	1.15e-11	57
myoblast	1.15e-11	57
multi-potent skeletal muscle stem cell	1.15e-11	57
muscle cell	1.96e-11	54
electrically responsive cell	5.29e-11	60
electrically active cell	5.29e-11	60
somatic cell	2.36e-10	591
squamous epithelial cell	5.49e-10	62
smooth muscle cell	9.77e-10	42
smooth muscle myoblast	9.77e-10	42
lining cell	1.83e-08	57
barrier cell	1.83e-08	57
endothelial cell	2.11e-08	35
vascular associated smooth muscle cell	2.65e-08	32
meso-epithelial cell	2.77e-08	44
blood vessel endothelial cell	3.61e-08	18
embryonic blood vessel endothelial progenitor cell	3.61e-08	18
epithelial cell of nephron	1.40e-07	16
endothelial cell of vascular tree	2.21e-07	24
kidney cortical cell	7.11e-07	13
renal cortical epithelial cell	7.11e-07	13

Uber Anatomy

Ontology term	p-value	n
mesenchyme	1.21e-16	238
entire embryonic mesenchyme	1.21e-16	238
unilaminar epithelium	3.03e-15	138
trunk mesenchyme	3.93e-15	143
trunk	4.78e-14	216
dermomyotome	8.46e-14	70
multilaminar epithelium	9.70e-14	82
vasculature	1.85e-13	79
vascular system	1.85e-13	79
epithelial tube	2.45e-13	118
cell layer	6.83e-13	312
somite	9.61e-13	83
paraxial mesoderm	9.61e-13	83
presomitic mesoderm	9.61e-13	83
presumptive segmental plate	9.61e-13	83
trunk paraxial mesoderm	9.61e-13	83
presumptive paraxial mesoderm	9.61e-13	83
epithelium	5.73e-12	309
vessel	1.44e-11	69
blood vessel	4.49e-11	60
epithelial tube open at both ends	4.49e-11	60
blood vasculature	4.49e-11	60
vascular cord	4.49e-11	60
skeletal muscle tissue	4.78e-11	61
striated muscle tissue	4.78e-11	61
myotome	4.78e-11	61
artery	2.66e-10	42
arterial blood vessel	2.66e-10	42
arterial system	2.66e-10	42
muscle tissue	5.24e-10	63
musculature	5.24e-10	63
musculature of body	5.24e-10	63
splanchnic layer of lateral plate mesoderm	4.83e-09	84
simple squamous epithelium	1.96e-08	22
multi-tissue structure	3.34e-08	347
endothelium	3.61e-08	18
blood vessel endothelium	3.61e-08	18
cardiovascular system endothelium	3.61e-08	18
nephron epithelium	1.40e-07	16
nephron	1.40e-07	16
uriniferous tubule	1.40e-07	16
metanephric mesenchyme	1.40e-07	16
nephrogenic mesenchyme	1.40e-07	16
squamous epithelium	3.06e-07	25
cardiovascular system	5.23e-07	110
cortex of kidney	7.11e-07	13
renal parenchyma	7.11e-07	13
systemic artery	7.62e-07	33
systemic arterial system	7.62e-07	33
cortex	8.84e-07	16

Disease

Ontology term	p-value	n
disease of cellular proliferation	8.34e-15	239
cancer	6.63e-14	235
cell type cancer	5.00e-09	143
carcinoma	1.34e-07	106

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.