Coexpression cluster:C1421

Full id: C1421_Mesenchymal_Preadipocyte_Fibroblast_tenocyte_Adipocyte_Osteoblast_Nucleus

Phase1 CAGE Peaks

Hg19::chr16:4431722..4431771,+	p@chr16:4431722..4431771 +
Hg19::chr19:14049136..14049171,-	p2@PODNL1
Hg19::chr19:14049184..14049242,-	p1@PODNL1
Hg19::chr1:1290954..1290971,-	p8@MXRA8
Hg19::chr1:1293904..1293949,-	p1@MXRA8
Hg19::chr21:47517478..47517529,+	p9@COL6A2

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:0005578	proteinaceous extracellular matrix	0.0118525173614682
GO:0044421	extracellular region part	0.0274556468016525
GO:0030198	extracellular matrix organization and biogenesis	0.0351588482143845
GO:0043062	extracellular structure organization and biogenesis	0.041676742962934
GO:0030674	protein binding, bridging	0.041676742962934
GO:0005201	extracellular matrix structural constituent	0.0467083833212877
GO:0006817	phosphate transport	0.0467083833212877

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
fibroblast	1.21e-27	76
contractile cell	3.85e-20	59
muscle precursor cell	8.64e-20	58
myoblast	8.64e-20	58
multi-potent skeletal muscle stem cell	8.64e-20	58
non-terminally differentiated cell	5.02e-19	106
muscle cell	1.30e-18	55
electrically responsive cell	1.18e-14	61
electrically active cell	1.18e-14	61
smooth muscle cell	1.31e-14	43
smooth muscle myoblast	1.31e-14	43
skin fibroblast	6.63e-12	23
multi fate stem cell	5.15e-11	427
somatic stem cell	3.15e-10	433
vascular associated smooth muscle cell	9.13e-10	32
stem cell	2.16e-09	441
preadipocyte	2.06e-08	12
stromal cell	1.36e-07	28
extracellular matrix secreting cell	4.65e-07	15

Uber Anatomy

Ontology term	p-value	n
dense mesenchyme tissue	3.41e-22	73
paraxial mesoderm	1.36e-21	72
presumptive paraxial mesoderm	1.36e-21	72
somite	1.39e-21	71
presomitic mesoderm	1.39e-21	71
presumptive segmental plate	1.39e-21	71
dermomyotome	1.39e-21	71
trunk paraxial mesoderm	1.39e-21	71
epithelial vesicle	2.80e-21	78
skeletal muscle tissue	1.28e-18	62
striated muscle tissue	1.28e-18	62
myotome	1.28e-18	62
mesenchyme	2.87e-18	160
entire embryonic mesenchyme	2.87e-18	160
muscle tissue	5.57e-18	64
musculature	5.57e-18	64
musculature of body	5.57e-18	64
trunk mesenchyme	1.55e-17	122
multilaminar epithelium	2.99e-17	83
organism subdivision	2.19e-13	264
integument	3.94e-11	46
integumental system	3.94e-11	46
trunk	4.04e-11	199
multi-tissue structure	4.70e-11	342
surface structure	7.48e-11	99
unilaminar epithelium	2.34e-09	148
skin of body	5.13e-09	41
multi-cellular organism	9.12e-09	656
organ component layer	9.36e-09	66
tissue	1.21e-08	773
adipose tissue	2.26e-07	14
mesoderm	6.74e-07	315
mesoderm-derived structure	6.74e-07	315
presumptive mesoderm	6.74e-07	315

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.