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Coexpression cluster:C4330

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Full id: C4330_leiomyoma_Smooth_Fibroblast_Preadipocyte_Mesenchymal_mesenchymal_Adipocyte



Phase1 CAGE Peaks

Hg19::chr3:45266600..45266635,-p2@TMEM158
Hg19::chr3:45266648..45266677,-p3@TMEM158
Hg19::chr3:45267139..45267195,-p1@ENST00000325090


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
dermomyotome6.03e-2170
somite6.94e-2083
paraxial mesoderm6.94e-2083
presomitic mesoderm6.94e-2083
presumptive segmental plate6.94e-2083
trunk paraxial mesoderm6.94e-2083
presumptive paraxial mesoderm6.94e-2083
multilaminar epithelium2.16e-1782
skeletal muscle tissue1.77e-1661
striated muscle tissue1.77e-1661
myotome1.77e-1661
artery7.04e-1642
arterial blood vessel7.04e-1642
arterial system7.04e-1642
muscle tissue3.16e-1563
musculature3.16e-1563
musculature of body3.16e-1563
systemic artery2.93e-1333
systemic arterial system2.93e-1333
trunk mesenchyme1.20e-11143
blood vessel1.23e-1060
epithelial tube open at both ends1.23e-1060
blood vasculature1.23e-1060
vascular cord1.23e-1060
splanchnic layer of lateral plate mesoderm9.03e-1084
trunk1.05e-08216
organism subdivision2.39e-08365
vessel3.63e-0869
unilaminar epithelium6.03e-08138
blood vessel smooth muscle7.49e-0810
arterial system smooth muscle7.49e-0810
artery smooth muscle tissue7.49e-0810
aorta smooth muscle tissue7.49e-0810
embryo8.23e-08612
vasculature1.29e-0779
vascular system1.29e-0779
multi-cellular organism2.38e-07659
embryonic structure7.21e-07605
developing anatomical structure7.21e-07605
Disease
Ontology termp-valuen
ovarian cancer7.00e-0814


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
E2F1#186934.907389214879320.008460985347239390.0326735754734825
E2F6#187635.017155731697390.00791769806886330.0323494432600741
SMC3#9126210.02995522995520.0126656379767470.0457743291803405



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.