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Coexpression cluster:C1641

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Full id: C1641_Mesenchymal_Nucleus_Fibroblast_tenocyte_Pericytes_normal_Smooth



Phase1 CAGE Peaks

Hg19::chr11:66103136..66103189,-p2@RIN1
Hg19::chr7:100199967..100200012,+p1@PCOLCE
Hg19::chr7:100200018..100200030,+p2@PCOLCE
Hg19::chr7:100200840..100200890,+p6@PCOLCE
Hg19::chr7:100201073..100201087,-p2@ENST00000544873


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:0005518collagen binding0.0324298847608999



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
dense mesenchyme tissue2.54e-2873
somite1.35e-2771
presomitic mesoderm1.35e-2771
presumptive segmental plate1.35e-2771
dermomyotome1.35e-2771
trunk paraxial mesoderm1.35e-2771
paraxial mesoderm1.52e-2772
presumptive paraxial mesoderm1.52e-2772
muscle tissue1.70e-2364
musculature1.70e-2364
musculature of body1.70e-2364
skeletal muscle tissue1.84e-2362
striated muscle tissue1.84e-2362
myotome1.84e-2362
epithelial vesicle2.90e-2378
multilaminar epithelium6.75e-2383
mesenchyme8.36e-17160
entire embryonic mesenchyme8.36e-17160
trunk mesenchyme5.88e-15122
integument1.11e-1146
integumental system1.11e-1146
surface structure1.63e-1199
skin of body1.85e-1041
unilaminar epithelium2.15e-09148
organism subdivision4.27e-09264
musculoskeletal system1.14e-08167
tissue1.48e-08773
multi-cellular organism2.38e-07656
articulation2.65e-078
skeletal joint2.65e-078
articular system2.65e-078
splanchnic layer of lateral plate mesoderm2.75e-0783
trunk3.37e-07199
vasculature4.62e-0778
vascular system4.62e-0778
multi-tissue structure5.72e-07342
artery6.01e-0742
arterial blood vessel6.01e-0742
arterial system6.01e-0742


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
RAD21#588536.21302033727380.007751055068811640.0318856325953844
REST#597835.790017229676810.009468788694433940.0356891559586411
TAL1#6886211.94744667097610.0104757781809920.0388012837338945



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.