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Coexpression cluster:C559

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Full id: C559_Skeletal_Pericytes_mesenchymal_Myoblast_rhabdomyosarcoma_skeletal_tongue



Phase1 CAGE Peaks

Hg19::chr11:17716498..17716504,+p2@ENST00000524885
Hg19::chr11:17741111..17741124,+p1@MYOD1
Hg19::chr11:17741254..17741282,+p2@MYOD1
Hg19::chr11:64012815..64012824,-p20@PPP1R14B
Hg19::chr11:85090324..85090329,-p@chr11:85090324..85090329
-
Hg19::chr13:99582467..99582528,-p@chr13:99582467..99582528
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Hg19::chr17:38502981..38502987,+p@chr17:38502981..38502987
+
Hg19::chr22:20103621..20103632,+p14@RANBP1
Hg19::chr22:20103644..20103662,+p10@RANBP1
Hg19::chr6:169588511..169588525,-p@chr6:169588511..169588525
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Hg19::chr6:169588532..169588548,-p@chr6:169588532..169588548
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Hg19::chr6:169588553..169588570,-p@chr6:169588553..169588570
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Hg19::chr6:169588594..169588599,-p@chr6:169588594..169588599
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Hg19::chr6:2783611..2783617,+p5@U56249
Hg19::chr6:2783684..2783703,+p1@U56249
Hg19::chr6:2783707..2783715,+p2@U56249


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 IDGO nameFDR corrected p-value
GO:0048625myoblast cell fate commitment0.0229580571962169
GO:0007518myoblast cell fate determination0.0229580571962169
GO:0000731DNA synthesis during DNA repair0.0306039852584672
GO:0030174regulation of DNA replication initiation0.0306039852584672
GO:0008536Ran GTPase binding0.0336599244224942
GO:0045445myoblast differentiation0.0427812955751279
GO:0003705RNA polymerase II transcription factor activity, enhancer binding0.0427812955751279
GO:0005092GDP-dissociation inhibitor activity0.0427812955751279
GO:0006275regulation of DNA replication0.0427812955751279
GO:0001709cell fate determination0.0427812955751279
GO:0004864protein phosphatase inhibitor activity0.0427812955751279
GO:0019212phosphatase inhibitor activity0.0427812955751279
GO:0006270DNA replication initiation0.0427812955751279
GO:0048741skeletal muscle fiber development0.0427812955751279
GO:0048747muscle fiber development0.0427812955751279
GO:0042692muscle cell differentiation0.0439194635543592
GO:0051052regulation of DNA metabolic process0.0440259557804808



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>

Uber Anatomy
Ontology termp-valuen
skeletal muscle tissue3.95e-1962
striated muscle tissue3.95e-1962
myotome3.95e-1962
muscle tissue1.65e-1864
musculature1.65e-1864
musculature of body1.65e-1864
somite1.30e-1671
presomitic mesoderm1.30e-1671
presumptive segmental plate1.30e-1671
dermomyotome1.30e-1671
trunk paraxial mesoderm1.30e-1671
paraxial mesoderm2.26e-1672
presumptive paraxial mesoderm2.26e-1672
dense mesenchyme tissue3.88e-1673
epithelial vesicle4.70e-1578
multilaminar epithelium4.22e-1483
trunk mesenchyme2.49e-09122
throat6.42e-092
unilaminar epithelium1.56e-07148
mesenchyme6.70e-07160
entire embryonic mesenchyme6.70e-07160


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.

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