Coexpression cluster:C480

Full id: C480_Pericytes_Skeletal_skeletal_mesenchymal_Hepatic_diaphragm_tongue

Phase1 CAGE Peaks

Hg19::chr11:67186174..67186179,+	p@chr11:67186174..67186179 +
Hg19::chr11:67186200..67186211,+	p@chr11:67186200..67186211 +
Hg19::chr13:75493774..75493776,-	p@chr13:75493774..75493776 -
Hg19::chr18:8054314..8054316,-	p@chr18:8054314..8054316 -
Hg19::chr19:48281847..48281853,+	p7@SEPW1
Hg19::chr19:48283739..48283754,+	p@chr19:48283739..48283754 +
Hg19::chr1:203052309..203052311,-	p@chr1:203052309..203052311 -
Hg19::chr1:203055129..203055147,-	p1@MYOG
Hg19::chr1:203144944..203144961,-	p1@MYBPH
Hg19::chr1:32138785..32138796,-	p18@COL16A1
Hg19::chr1:32138798..32138820,-	p13@COL16A1
Hg19::chr22:24026194..24026197,-	p5@GUSBP11
Hg19::chr2:121637394..121637397,+	p@chr2:121637394..121637397 +
Hg19::chr2:218718071..218718103,-	p@chr2:218718071..218718103 -
Hg19::chr4:167520111..167520112,-	p@chr4:167520111..167520112 -
Hg19::chr8:144874971..144874988,-	p@chr8:144874971..144874988 -
Hg19::chr8:144875208..144875222,-	p@chr8:144875208..144875222 -
Hg19::chr8:144875233..144875250,-	p@chr8:144875233..144875250 -
Hg19::chr8:144875310..144875315,-	p19@SCRIB
Hg19::chr9:136390071..136390087,-	p1@TMEM8C

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

---

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

---

GO ID	GO name	FDR corrected p-value
GO:0005597	collagen type XVI	0.0169257035205463
GO:0005593	FACIT collagen	0.0380648999849687
GO:0006942	regulation of striated muscle contraction	0.0380648999849687
GO:0030934	anchoring collagen	0.0380648999849687
GO:0032982	myosin filament	0.044193204806296
GO:0005863	striated muscle thick filament	0.044193204806296
GO:0005859	muscle myosin complex	0.044193204806296
GO:0016460	myosin II complex	0.044193204806296
GO:0006941	striated muscle contraction	0.044193204806296
GO:0006937	regulation of muscle contraction	0.044193204806296
GO:0005178	integrin binding	0.044193204806296
GO:0048741	skeletal muscle fiber development	0.044193204806296
GO:0048747	muscle fiber development	0.044193204806296
GO:0008307	structural constituent of muscle	0.044193204806296
GO:0030017	sarcomere	0.044193204806296
GO:0008430	selenium binding	0.044193204806296
GO:0022610	biological adhesion	0.044193204806296
GO:0007155	cell adhesion	0.044193204806296
GO:0030016	myofibril	0.044193204806296
GO:0005581	collagen	0.044193204806296
GO:0044424	intracellular part	0.044193204806296
GO:0044449	contractile fiber part	0.0451849650734512
GO:0043292	contractile fiber	0.0451849650734512
GO:0005737	cytoplasm	0.0451849650734512
GO:0007519	skeletal muscle development	0.0451849650734512

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>

---

Cell Type

Ontology term	p-value	n
cell of skeletal muscle	1.20e-88	9
skeletal muscle satellite cell	1.00e-22	3
contractile cell	2.10e-17	59
muscle cell	2.51e-14	55
muscle precursor cell	1.44e-13	58
myoblast	1.44e-13	58
multi-potent skeletal muscle stem cell	1.44e-13	58
electrically responsive cell	7.00e-13	61
electrically active cell	7.00e-13	61
central nervous system pericyte	7.98e-10	2
non-terminally differentiated cell	4.38e-07	106
hepatic stellate cell	7.28e-07	3

Uber Anatomy

Ontology term	p-value	n
skeletal muscle tissue	7.27e-21	62
striated muscle tissue	7.27e-21	62
myotome	7.27e-21	62
muscle tissue	3.40e-20	64
musculature	3.40e-20	64
musculature of body	3.40e-20	64
somite	3.83e-18	71
presomitic mesoderm	3.83e-18	71
presumptive segmental plate	3.83e-18	71
dermomyotome	3.83e-18	71
trunk paraxial mesoderm	3.83e-18	71
paraxial mesoderm	6.97e-18	72
presumptive paraxial mesoderm	6.97e-18	72
dense mesenchyme tissue	1.25e-17	73
epithelial vesicle	1.85e-16	78
multilaminar epithelium	1.99e-15	83
trunk mesenchyme	9.28e-13	122
unilaminar epithelium	2.28e-10	148
throat	1.57e-09	2
mesenchyme	1.59e-09	160
entire embryonic mesenchyme	1.59e-09	160
trunk	1.78e-07	199
musculoskeletal system	3.07e-07	167

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

---

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

---

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

---

This analysis result is provided for C0 - C305 clusters.