Coexpression cluster:C3750

Full id: C3750_smooth_bladder_Adipocyte_Mesenchymal_aorta_uterus_esophagus

Phase1 CAGE Peaks

Hg19::chr19:11650793..11650806,+	p@chr19:11650793..11650806 +
Hg19::chr20:35169914..35169941,+	p1@MYL9
Hg19::chr8:41986816..41986825,-	p1@ENST00000520355

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:0005859	muscle myosin complex	0.0105086541858001
GO:0016460	myosin II complex	0.0105086541858001
GO:0006937	regulation of muscle contraction	0.0105086541858001
GO:0008307	structural constituent of muscle	0.0105086541858001
GO:0044449	contractile fiber part	0.0106754582204953
GO:0043292	contractile fiber	0.0106754582204953
GO:0016459	myosin complex	0.0152983128963348
GO:0003012	muscle system process	0.0183484438164763
GO:0006936	muscle contraction	0.0183484438164763
GO:0051239	regulation of multicellular organismal process	0.0269312696017041
GO:0015629	actin cytoskeleton	0.0269312696017041

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	3.09e-23	180
contractile cell	4.42e-14	59
muscle precursor cell	5.89e-14	57
myoblast	5.89e-14	57
multi-potent skeletal muscle stem cell	5.89e-14	57
smooth muscle cell	1.44e-13	42
smooth muscle myoblast	1.44e-13	42
muscle cell	1.82e-13	54
fibroblast	6.20e-13	75
electrically responsive cell	4.29e-12	60
electrically active cell	4.29e-12	60
vascular associated smooth muscle cell	7.56e-11	32
mesodermal cell	4.92e-10	119
fat cell	4.75e-07	15

Uber Anatomy

Ontology term	p-value	n
trunk mesenchyme	2.09e-18	143
multi-tissue structure	3.08e-17	347
multi-cellular organism	4.39e-16	659
somite	5.82e-16	83
paraxial mesoderm	5.82e-16	83
presomitic mesoderm	5.82e-16	83
presumptive segmental plate	5.82e-16	83
trunk paraxial mesoderm	5.82e-16	83
presumptive paraxial mesoderm	5.82e-16	83
muscle tissue	1.58e-15	63
musculature	1.58e-15	63
musculature of body	1.58e-15	63
dermomyotome	1.22e-14	70
skeletal muscle tissue	1.72e-14	61
striated muscle tissue	1.72e-14	61
myotome	1.72e-14	61
trunk	5.19e-14	216
mesenchyme	1.85e-13	238
entire embryonic mesenchyme	1.85e-13	238
organism subdivision	1.98e-13	365
multilaminar epithelium	2.24e-13	82
circulatory system	4.12e-13	113
anatomical system	2.50e-12	625
anatomical group	3.75e-12	626
cardiovascular system	4.94e-12	110
splanchnic layer of lateral plate mesoderm	8.88e-12	84
epithelial tube	2.15e-11	118
vasculature	2.38e-10	79
vascular system	2.38e-10	79
unilaminar epithelium	1.64e-09	138
anatomical cluster	2.56e-09	286
cell layer	2.78e-09	312
mesoderm	4.55e-09	448
mesoderm-derived structure	4.55e-09	448
presumptive mesoderm	4.55e-09	448
epithelium	5.01e-09	309
primary circulatory organ	7.27e-09	27
embryo	1.58e-08	612
blood vessel	1.75e-08	60
epithelial tube open at both ends	1.75e-08	60
blood vasculature	1.75e-08	60
vascular cord	1.75e-08	60
vessel	4.24e-08	69
embryonic structure	8.64e-08	605
developing anatomical structure	8.64e-08	605
artery	1.07e-07	42
arterial blood vessel	1.07e-07	42
arterial system	1.07e-07	42
adult organism	1.13e-07	115
compound organ	1.40e-07	69
heart	1.51e-07	24
primitive heart tube	1.51e-07	24
primary heart field	1.51e-07	24
anterior lateral plate mesoderm	1.51e-07	24
heart tube	1.51e-07	24
heart primordium	1.51e-07	24
cardiac mesoderm	1.51e-07	24
cardiogenic plate	1.51e-07	24
heart rudiment	1.51e-07	24
germ layer	1.62e-07	604
embryonic tissue	1.62e-07	604
presumptive structure	1.62e-07	604
epiblast (generic)	1.62e-07	604
anatomical conduit	5.28e-07	241

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.