Coexpression cluster:C3181

Full id: C3181_Mesenchymal_Smooth_Hair_Aortic_Fibroblast_Hepatic_tridermal

Phase1 CAGE Peaks

Hg19::chr11:6341724..6341760,-	p1@PRKCDBP
Hg19::chr19:48828788..48828853,+	p1@EMP3
Hg19::chr22:38071636..38071652,+	p1@LGALS1

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:0016265	death	0.0394088188776617
GO:0008219	cell death	0.0394088188776617
GO:0045445	myoblast differentiation	0.0394088188776617
GO:0048741	skeletal muscle fiber development	0.0394088188776617
GO:0048747	muscle fiber development	0.0394088188776617
GO:0048468	cell development	0.0394088188776617
GO:0042692	muscle cell differentiation	0.0394088188776617
GO:0007519	skeletal muscle development	0.0487380796564191
GO:0014706	striated muscle development	0.0487380796564191
GO:0048869	cellular developmental process	0.0487380796564191
GO:0030154	cell differentiation	0.0487380796564191
GO:0043123	positive regulation of I-kappaB kinase/NF-kappaB cascade	0.0487380796564191
GO:0043122	regulation of I-kappaB kinase/NF-kappaB cascade	0.0487380796564191
GO:0048856	anatomical structure development	0.0487380796564191

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	3.31e-42	180
somatic cell	2.06e-33	591
mesodermal cell	2.25e-27	119
contractile cell	2.52e-25	59
muscle precursor cell	3.71e-24	57
myoblast	3.71e-24	57
multi-potent skeletal muscle stem cell	3.71e-24	57
muscle cell	2.06e-23	54
animal cell	5.92e-22	679
eukaryotic cell	5.92e-22	679
smooth muscle cell	3.87e-21	42
smooth muscle myoblast	3.87e-21	42
fibroblast	2.74e-20	75
electrically responsive cell	7.42e-19	60
electrically active cell	7.42e-19	60
vascular associated smooth muscle cell	2.45e-17	32
embryonic cell	2.34e-15	248
multi fate stem cell	1.38e-14	430
somatic stem cell	3.64e-14	436
native cell	7.66e-13	722
stem cell	1.15e-12	444
skin fibroblast	3.61e-08	23
cardiocyte	1.05e-07	16

Uber Anatomy

Ontology term	p-value	n
somite	8.91e-30	83
paraxial mesoderm	8.91e-30	83
presomitic mesoderm	8.91e-30	83
presumptive segmental plate	8.91e-30	83
trunk paraxial mesoderm	8.91e-30	83
presumptive paraxial mesoderm	8.91e-30	83
dermomyotome	2.92e-26	70
multilaminar epithelium	4.73e-25	82
splanchnic layer of lateral plate mesoderm	3.75e-23	84
skeletal muscle tissue	2.99e-22	61
striated muscle tissue	2.99e-22	61
myotome	2.99e-22	61
vasculature	9.62e-22	79
vascular system	9.62e-22	79
muscle tissue	2.14e-21	63
musculature	2.14e-21	63
musculature of body	2.14e-21	63
trunk mesenchyme	3.85e-20	143
cardiovascular system	5.73e-20	110
blood vessel	9.10e-20	60
epithelial tube open at both ends	9.10e-20	60
blood vasculature	9.10e-20	60
vascular cord	9.10e-20	60
artery	1.01e-19	42
arterial blood vessel	1.01e-19	42
arterial system	1.01e-19	42
vessel	1.40e-19	69
circulatory system	1.73e-19	113
epithelial tube	7.61e-17	118
systemic artery	1.05e-15	33
systemic arterial system	1.05e-15	33
mesoderm	2.21e-15	448
mesoderm-derived structure	2.21e-15	448
presumptive mesoderm	2.21e-15	448
unilaminar epithelium	9.14e-13	138
trunk	1.04e-12	216
lateral plate mesoderm	6.80e-12	216
musculoskeletal system	8.70e-12	167
mesenchyme	4.04e-10	238
entire embryonic mesenchyme	4.04e-10	238
aorta	7.66e-09	21
aortic system	7.66e-09	21
surface structure	1.86e-08	95
integument	2.95e-08	45
integumental system	2.95e-08	45
anatomical system	3.26e-07	625
multi-cellular organism	3.34e-07	659
anatomical group	3.39e-07	626
skin of body	6.45e-07	40
heart	8.15e-07	24
primitive heart tube	8.15e-07	24
primary heart field	8.15e-07	24
anterior lateral plate mesoderm	8.15e-07	24
heart tube	8.15e-07	24
heart primordium	8.15e-07	24
cardiac mesoderm	8.15e-07	24
cardiogenic plate	8.15e-07	24
heart rudiment	8.15e-07	24

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.