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Coexpression cluster:C1896

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Full id: C1896_Smooth_mesenchymal_heart_tongue_left_Fibroblast_Endothelial



Phase1 CAGE Peaks

Hg19::chr2:228743006..228743014,+p@chr2:228743006..228743014
+
Hg19::chr3:112081052..112081065,-p@chr3:112081052..112081065
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Hg19::chr3:112081099..112081112,-p@chr3:112081099..112081112
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Hg19::chr5:63961948..63961959,-p@chr5:63961948..63961959
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Hg19::chr8:96701429..96701463,-p@chr8:96701429..96701463
-


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


No GOStat results

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
primary circulatory organ1.56e-3327
splanchnic layer of lateral plate mesoderm2.29e-3084
heart5.56e-2924
primitive heart tube5.56e-2924
primary heart field5.56e-2924
anterior lateral plate mesoderm5.56e-2924
heart tube5.56e-2924
heart primordium5.56e-2924
cardiac mesoderm5.56e-2924
cardiogenic plate5.56e-2924
heart rudiment5.56e-2924
circulatory system2.59e-28113
cardiovascular system3.21e-25110
vessel1.00e-1969
epithelial tube1.01e-19118
artery9.80e-1942
arterial blood vessel9.80e-1942
arterial system9.80e-1942
vasculature4.27e-1879
vascular system4.27e-1879
blood vessel1.24e-1760
epithelial tube open at both ends1.24e-1760
blood vasculature1.24e-1760
vascular cord1.24e-1760
compound organ6.06e-1669
systemic artery1.67e-1533
systemic arterial system1.67e-1533
muscle tissue9.68e-1363
musculature9.68e-1363
musculature of body9.68e-1363
tube1.01e-12194
skeletal muscle tissue2.12e-1261
striated muscle tissue2.12e-1261
myotome2.12e-1261
anatomical conduit3.53e-12241
anatomical cluster1.19e-10286
dermomyotome7.50e-1070
heart blood vessel7.68e-105
coronary vessel7.68e-105
multi-tissue structure7.54e-09347
epithelium5.67e-08309
cell layer9.67e-08312
artery wall1.82e-074
tunica adventitia of artery1.82e-074
adventitia1.82e-074
tunica adventitia of blood vessel1.82e-074
aorta tunica adventitia1.82e-074
aorta wall1.82e-074
multilaminar epithelium2.15e-0782
somite3.16e-0783
paraxial mesoderm3.16e-0783
presomitic mesoderm3.16e-0783
presumptive segmental plate3.16e-0783
trunk paraxial mesoderm3.16e-0783
presumptive paraxial mesoderm3.16e-0783
valve8.37e-073
cardiac mesenchyme8.37e-073
cardial valve8.37e-073
tunica intima8.37e-073
heart layer8.37e-073
endocardium8.37e-073
endocardial cushion8.37e-073
presumptive endocardium8.37e-073


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.