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Coexpression cluster:C934

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Full id: C934_basal_Preadipocyte_Adipocyte_Fibroblast_Mesenchymal_spindle_Myoblast



Phase1 CAGE Peaks

Hg19::chr1:86043705..86043730,-p11@DDAH1
Hg19::chr1:86043743..86043752,-p25@DDAH1
Hg19::chr1:86043758..86043791,-p5@DDAH1
Hg19::chr1:86043792..86043803,-p18@DDAH1
Hg19::chr1:86043808..86043860,-p2@DDAH1
Hg19::chr1:86043864..86043895,-p3@DDAH1
Hg19::chr1:86043921..86043937,-p6@DDAH1
Hg19::chr1:86043992..86044008,-p7@DDAH1
Hg19::chr1:86044028..86044041,-p10@DDAH1


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
somite3.23e-2383
paraxial mesoderm3.23e-2383
presomitic mesoderm3.23e-2383
presumptive segmental plate3.23e-2383
trunk paraxial mesoderm3.23e-2383
presumptive paraxial mesoderm3.23e-2383
dermomyotome3.38e-2070
trunk mesenchyme5.39e-19143
organism subdivision7.12e-19365
multilaminar epithelium5.76e-1882
skeletal muscle tissue3.18e-1761
striated muscle tissue3.18e-1761
myotome3.18e-1761
muscle tissue4.75e-1763
musculature4.75e-1763
musculature of body4.75e-1763
splanchnic layer of lateral plate mesoderm2.80e-1684
vasculature1.39e-1579
vascular system1.39e-1579
trunk6.68e-15216
cell layer1.83e-14312
multi-tissue structure3.90e-14347
epithelium8.30e-14309
blood vessel2.06e-1360
epithelial tube open at both ends2.06e-1360
blood vasculature2.06e-1360
vascular cord2.06e-1360
epithelial tube2.35e-13118
multi-cellular organism3.89e-13659
unilaminar epithelium9.61e-13138
vessel1.07e-1269
artery1.98e-1242
arterial blood vessel1.98e-1242
arterial system1.98e-1242
cardiovascular system1.15e-11110
anatomical cluster2.25e-11286
circulatory system2.28e-11113
mesenchyme5.90e-11238
entire embryonic mesenchyme5.90e-11238
systemic artery2.50e-1033
systemic arterial system2.50e-1033
anatomical system6.86e-10625
anatomical group1.14e-09626
integument1.12e-0845
integumental system1.12e-0845
anatomical conduit2.78e-08241
tube3.85e-08194
surface structure8.44e-0895
aorta2.46e-0721
aortic system2.46e-0721
skin of body3.12e-0740


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
CTCF#1066474.169088290169470.0001982812163300480.00238163219692856
MAX#414996.452555509007125.15172852378632e-083.28876146268777e-06
POLR2A#543092.147453176558070.001029412892608020.00728837726873361



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.