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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0003102!1.42e-11!95;UBERON:0000486!1.99e-10!82;UBERON:0000914!3.01e-10!83;UBERON:0002329!3.01e-10!83;UBERON:0003077!3.01e-10!83;UBERON:0003059!3.01e-10!83;UBERON:0007282!3.01e-10!83;UBERON:0009618!3.01e-10!83;UBERON:0007285!3.01e-10!83;UBERON:0002049!4.58e-10!79;UBERON:0007798!4.58e-10!79;UBERON:0000055!1.81e-09!69;UBERON:0004290!6.86e-09!70;UBERON:0000468!1.16e-07!659;UBERON:0004872!2.09e-07!84;UBERON:0002100!2.11e-07!216;UBERON:0002199!2.66e-07!45;UBERON:0002416!2.66e-07!45;UBERON:0002385!3.29e-07!63;UBERON:0001015!3.29e-07!63;UBERON:0000383!3.29e-07!63;UBERON:0001981!3.84e-07!60;UBERON:0007500!3.84e-07!60;UBERON:0004537!3.84e-07!60;UBERON:0006965!3.84e-07!60;UBERON:0001134!5.22e-07!61;UBERON:0002036!5.22e-07!61;UBERON:0003082!5.22e-07!61;UBERON:0000490!6.99e-07!138
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}}
}}

Revision as of 18:41, 8 August 2012


Full id: C2875_Wilms_epithelioid_pharyngeal_neuroectodermal_Olfactory_Mesenchymal_lung



Phase1 CAGE Peaks

Hg19::chr7:116199872..116199922,+p16@CAV1
Hg19::chr7:116200671..116200735,+p8@CAV1
Hg19::chr7:116200738..116200765,+p10@CAV1
Hg19::chr7:116200807..116200818,+p20@CAV1


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
embryonic cell1.76e-12248
mesodermal cell1.85e-12119
non-terminally differentiated cell2.06e-12180
fibroblast7.49e-1075
squamous epithelial cell1.54e-0862
lining cell6.45e-0857
barrier cell6.45e-0857
endothelial cell of vascular tree1.85e-0724
skin fibroblast2.38e-0723
Uber Anatomy
Ontology termp-valuen
surface structure1.42e-1195
multilaminar epithelium1.99e-1082
somite3.01e-1083
paraxial mesoderm3.01e-1083
presomitic mesoderm3.01e-1083
presumptive segmental plate3.01e-1083
trunk paraxial mesoderm3.01e-1083
presumptive paraxial mesoderm3.01e-1083
vasculature4.58e-1079
vascular system4.58e-1079
vessel1.81e-0969
dermomyotome6.86e-0970
multi-cellular organism1.16e-07659
splanchnic layer of lateral plate mesoderm2.09e-0784
trunk2.11e-07216
integument2.66e-0745
integumental system2.66e-0745
muscle tissue3.29e-0763
musculature3.29e-0763
musculature of body3.29e-0763
blood vessel3.84e-0760
epithelial tube open at both ends3.84e-0760
blood vasculature3.84e-0760
vascular cord3.84e-0760
skeletal muscle tissue5.22e-0761
striated muscle tissue5.22e-0761
myotome5.22e-0761
unilaminar epithelium6.99e-07138


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)

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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.