Coexpression cluster:C1896

Full id: C1896_Smooth_mesenchymal_heart_tongue_left_Fibroblast_Endothelial

Phase1 CAGE Peaks

Hg19::chr2:228743006..228743014,+	p@chr2:228743006..228743014 +
Hg19::chr3:112081052..112081065,-	p@chr3:112081052..112081065 -
Hg19::chr3:112081099..112081112,-	p@chr3:112081099..112081112 -
Hg19::chr5:63961948..63961959,-	p@chr5:63961948..63961959 -
Hg19::chr8:96701429..96701463,-	p@chr8:96701429..96701463 -

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><br>

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Cell Type

Ontology term	p-value	n
smooth muscle cell of the coronary artery	3.13e-50	3
smooth muscle cell of the brachiocephalic vasculature	5.07e-34	2
vascular associated smooth muscle cell	1.19e-32	32
smooth muscle cell of the subclavian artery	1.16e-30	5
smooth muscle cell	3.37e-24	43
smooth muscle myoblast	3.37e-24	43
muscle cell	8.05e-19	55
muscle precursor cell	8.02e-18	58
myoblast	8.02e-18	58
multi-potent skeletal muscle stem cell	8.02e-18	58
fibroblast of pulmonary artery	8.72e-18	1
contractile cell	1.64e-17	59
electrically responsive cell	6.38e-17	61
electrically active cell	6.38e-17	61
cardiocyte	7.26e-17	16
smooth muscle cell of the internal thoracic artery	1.03e-09	2
non-terminally differentiated cell	2.61e-09	106
mesodermal cell	3.06e-08	121

Uber Anatomy

Ontology term	p-value	n
heart blood vessel	4.63e-53	5
coronary vessel	4.63e-53	5
coronary artery	3.13e-50	3
systemic artery	5.61e-40	33
systemic arterial system	5.61e-40	33
artery	1.27e-38	42
arterial blood vessel	1.27e-38	42
arterial system	1.27e-38	42
brachiocephalic artery	5.07e-34	2
brachiocephalic vasculature	5.07e-34	2
thoracic segment blood vessel	1.16e-30	5
subclavian artery	1.16e-30	5
splanchnic layer of lateral plate mesoderm	8.85e-28	83
epithelial tube open at both ends	2.52e-27	59
blood vessel	2.52e-27	59
blood vasculature	2.52e-27	59
vascular cord	2.52e-27	59
heart	1.87e-24	24
primitive heart tube	1.87e-24	24
primary heart field	1.87e-24	24
anterior lateral plate mesoderm	1.87e-24	24
heart tube	1.87e-24	24
heart primordium	1.87e-24	24
cardiac mesoderm	1.87e-24	24
cardiogenic plate	1.87e-24	24
heart rudiment	1.87e-24	24
vessel	1.27e-23	68
trunk blood vessel	3.98e-22	7
primary circulatory organ	9.84e-22	27
cardiovascular system	5.64e-21	109
vasculature	1.66e-20	78
vascular system	1.66e-20	78
circulatory system	2.16e-20	112
epithelial tube	1.73e-19	117
skeletal muscle tissue	1.22e-16	62
striated muscle tissue	1.22e-16	62
myotome	1.22e-16	62
muscle tissue	4.19e-16	64
musculature	4.19e-16	64
musculature of body	4.19e-16	64
somite	1.82e-14	71
presomitic mesoderm	1.82e-14	71
presumptive segmental plate	1.82e-14	71
dermomyotome	1.82e-14	71
trunk paraxial mesoderm	1.82e-14	71
paraxial mesoderm	2.95e-14	72
presumptive paraxial mesoderm	2.95e-14	72
dense mesenchyme tissue	4.70e-14	73
epithelial vesicle	4.06e-13	78
multilaminar epithelium	2.71e-12	83
tube	1.81e-11	192
lateral plate mesoderm	8.49e-11	203
internal thoracic artery	1.03e-09	2
mixed ectoderm/mesoderm/endoderm-derived structure	1.44e-09	2
developing epithelial placode	1.44e-09	2
respiratory system arterial blood vessel	1.44e-09	2
respiratory system blood vessel	1.44e-09	2
respiratory system artery	1.44e-09	2
head blood vessel	1.44e-09	2
pulmonary artery	1.44e-09	2
pulmonary vascular system	1.44e-09	2
pharyngeal vasculature	1.44e-09	2
truncus arteriosus	1.44e-09	2
aortic sac	1.44e-09	2
pharyngeal arch artery	1.44e-09	2
anatomical conduit	5.49e-09	240
compound organ	1.57e-08	68
unilaminar epithelium	2.15e-08	148
trunk mesenchyme	3.62e-08	122
epithelium	7.99e-07	306
outflow tract	8.62e-07	3
cell layer	9.54e-07	309

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.