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Coexpression cluster:C3992

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Full id: C3992_skeletal_Preadipocyte_mature_Adipocyte_Cardiac_heart_Hepatocyte



Phase1 CAGE Peaks

Hg19::chr1:64058939..64058965,+p2@PGM1
Hg19::chr1:64059025..64059107,+p1@PGM1
Hg19::chr1:64059117..64059128,+p4@PGM1


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>


Cell Type
Ontology termp-valuen
non-terminally differentiated cell5.50e-10180
fat cell1.44e-0915
stuff accumulating cell8.48e-0839
muscle precursor cell5.34e-0757
myoblast5.34e-0757
multi-potent skeletal muscle stem cell5.34e-0757
Uber Anatomy
Ontology termp-valuen
mesenchyme1.29e-11238
entire embryonic mesenchyme1.29e-11238
trunk1.79e-11216
multi-tissue structure4.61e-11347
organism subdivision1.14e-10365
trunk mesenchyme1.57e-10143
primordium1.52e-09168
muscle tissue3.98e-0963
musculature3.98e-0963
musculature of body3.98e-0963
immaterial anatomical entity4.61e-09126
skeletal muscle tissue9.80e-0961
striated muscle tissue9.80e-0961
myotome9.80e-0961
multilaminar epithelium3.35e-0882
dermomyotome2.94e-0770
somite4.18e-0783
paraxial mesoderm4.18e-0783
presomitic mesoderm4.18e-0783
presumptive segmental plate4.18e-0783
trunk paraxial mesoderm4.18e-0783
presumptive paraxial mesoderm4.18e-0783
subdivision of trunk4.77e-07113


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
FOXA1#3169311.08141974938550.000734755275698670.00581870687281569



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.