Coexpression cluster:C913

Full id: C913_mesenchymal_Skeletal_Myoblast_extraskeletal_skeletal_rhabdomyosarcoma_small

Phase1 CAGE Peaks

Hg19::chr16:31076151..31076158,-	p19@ZNF668
Hg19::chr16:31076273..31076288,-	p11@ZNF668
Hg19::chr21:30503154..30503180,+	p6@C21orf7
Hg19::chr21:30503192..30503203,+	p9@C21orf7
Hg19::chr21:30503294..30503312,+	p10@C21orf7
Hg19::chr2:175629135..175629148,-	p3@CHRNA1
Hg19::chr2:175629150..175629163,-	p2@CHRNA1
Hg19::chr2:175629164..175629224,-	p1@CHRNA1
Hg19::chr2:45419799..45419807,-	p1@ENST00000454673 p1@uc002rur.1

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:0031594	neuromuscular junction	0.0338541633817044
GO:0007274	neuromuscular synaptic transmission	0.0338541633817044
GO:0007528	neuromuscular junction development	0.0338541633817044
GO:0005892	nicotinic acetylcholine-gated receptor-channel complex	0.0338541633817044
GO:0015464	acetylcholine receptor activity	0.0342161117398076
GO:0042166	acetylcholine binding	0.0342161117398076
GO:0004889	nicotinic acetylcholine-activated cation-selective channel activity	0.0342161117398076
GO:0042391	regulation of membrane potential	0.0381595928268519
GO:0050808	synapse organization and biogenesis	0.0381595928268519
GO:0048741	skeletal muscle fiber development	0.0381595928268519
GO:0048747	muscle fiber development	0.0381595928268519
GO:0043176	amine binding	0.0381595928268519

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
cell of skeletal muscle	1.55e-36	9
skeletal muscle myoblast	1.60e-17	4
skeletal muscle satellite cell	5.79e-13	3
muscle precursor cell	1.04e-12	58
myoblast	1.04e-12	58
multi-potent skeletal muscle stem cell	1.04e-12	58
contractile cell	4.67e-09	59
muscle cell	2.66e-08	55
electrically responsive cell	3.01e-07	61
electrically active cell	3.01e-07	61

Uber Anatomy

Ontology term	p-value	n
skeletal muscle tissue	6.58e-20	62
striated muscle tissue	6.58e-20	62
myotome	6.58e-20	62
muscle tissue	3.86e-19	64
musculature	3.86e-19	64
musculature of body	3.86e-19	64
somite	8.58e-17	71
presomitic mesoderm	8.58e-17	71
presumptive segmental plate	8.58e-17	71
dermomyotome	8.58e-17	71
trunk paraxial mesoderm	8.58e-17	71
paraxial mesoderm	1.70e-16	72
presumptive paraxial mesoderm	1.70e-16	72
dense mesenchyme tissue	3.32e-16	73
epithelial vesicle	7.16e-15	78
trunk mesenchyme	7.01e-14	122
multilaminar epithelium	1.06e-13	83
unilaminar epithelium	2.00e-11	148
organism subdivision	3.42e-10	264
muscle structure	1.24e-09	2
muscle organ	1.24e-09	2
throat	2.64e-09	2
mesenchyme	3.02e-09	160
entire embryonic mesenchyme	3.02e-09	160
open tracheal system trachea	7.64e-09	2
trunk	1.01e-08	199
musculoskeletal system	8.94e-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

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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.