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Coexpression cluster:C2763: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000475!1.47e-13!264;UBERON:0002100!2.78e-12!199;UBERON:0000483!4.05e-11!306;UBERON:0000119!5.41e-11!309;UBERON:0003104!6.62e-11!160;UBERON:0009142!6.62e-11!160;UBERON:0005256!3.59e-10!122;UBERON:0000486!4.47e-10!83;UBERON:0001637!1.46e-09!42;UBERON:0003509!1.46e-09!42;UBERON:0004572!1.46e-09!42;UBERON:0000490!1.61e-09!148;UBERON:0001134!1.77e-09!62;UBERON:0002036!1.77e-09!62;UBERON:0003082!1.77e-09!62;UBERON:0000481!2.10e-09!342;UBERON:0000477!4.44e-09!373;UBERON:0003914!4.85e-09!117;UBERON:0002385!5.40e-09!64;UBERON:0001015!5.40e-09!64;UBERON:0000383!5.40e-09!64;UBERON:0002329!7.88e-09!71;UBERON:0003059!7.88e-09!71;UBERON:0007282!7.88e-09!71;UBERON:0004290!7.88e-09!71;UBERON:0009618!7.88e-09!71;UBERON:0007524!1.36e-08!73;UBERON:0000467!1.53e-08!624;UBERON:0000480!1.65e-08!625;UBERON:0000468!2.05e-08!656;UBERON:0003077!2.17e-08!72;UBERON:0007285!2.17e-08!72;UBERON:0007503!2.54e-08!78;UBERON:0002049!4.70e-08!78;UBERON:0007798!4.70e-08!78;UBERON:0000922!8.83e-08!592;UBERON:0004573!1.63e-07!33;UBERON:0004571!1.63e-07!33;UBERON:0007500!1.78e-07!59;UBERON:0001981!1.78e-07!59;UBERON:0004537!1.78e-07!59;UBERON:0006965!1.78e-07!59;UBERON:0005156!4.25e-07!59;UBERON:0000990!4.25e-07!59
|ontology_enrichment_uberon=UBERON:0000475!1.47e-13!264;UBERON:0002100!2.78e-12!199;UBERON:0000483!4.05e-11!306;UBERON:0000119!5.41e-11!309;UBERON:0003104!6.62e-11!160;UBERON:0009142!6.62e-11!160;UBERON:0005256!3.59e-10!122;UBERON:0000486!4.47e-10!83;UBERON:0001637!1.46e-09!42;UBERON:0003509!1.46e-09!42;UBERON:0004572!1.46e-09!42;UBERON:0000490!1.61e-09!148;UBERON:0001134!1.77e-09!62;UBERON:0002036!1.77e-09!62;UBERON:0003082!1.77e-09!62;UBERON:0000481!2.10e-09!342;UBERON:0000477!4.44e-09!373;UBERON:0003914!4.85e-09!117;UBERON:0002385!5.40e-09!64;UBERON:0001015!5.40e-09!64;UBERON:0000383!5.40e-09!64;UBERON:0002329!7.88e-09!71;UBERON:0003059!7.88e-09!71;UBERON:0007282!7.88e-09!71;UBERON:0004290!7.88e-09!71;UBERON:0009618!7.88e-09!71;UBERON:0007524!1.36e-08!73;UBERON:0000467!1.53e-08!624;UBERON:0000480!1.65e-08!625;UBERON:0000468!2.05e-08!656;UBERON:0003077!2.17e-08!72;UBERON:0007285!2.17e-08!72;UBERON:0007503!2.54e-08!78;UBERON:0002049!4.70e-08!78;UBERON:0007798!4.70e-08!78;UBERON:0000922!8.83e-08!592;UBERON:0004573!1.63e-07!33;UBERON:0004571!1.63e-07!33;UBERON:0007500!1.78e-07!59;UBERON:0001981!1.78e-07!59;UBERON:0004537!1.78e-07!59;UBERON:0006965!1.78e-07!59;UBERON:0005156!4.25e-07!59;UBERON:0000990!4.25e-07!59
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}}
}}

Revision as of 15:42, 26 November 2012


Full id: C2763_mucinous_glioblastoma_Myoblast_myxofibrosarcoma_fibrous_Smooth_squamous



Phase1 CAGE Peaks

Hg19::chr3:98515252..98515283,-p30@DCBLD2
Hg19::chr3:98516175..98516240,-p@chr3:98516175..98516240
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Hg19::chr3:98516242..98516317,-p@chr3:98516242..98516317
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Hg19::chr3:98516353..98516419,-p@chr3:98516353..98516419
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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
organism subdivision1.47e-13264
trunk2.78e-12199
epithelium4.05e-11306
cell layer5.41e-11309
mesenchyme6.62e-11160
entire embryonic mesenchyme6.62e-11160
trunk mesenchyme3.59e-10122
multilaminar epithelium4.47e-1083
artery1.46e-0942
arterial blood vessel1.46e-0942
arterial system1.46e-0942
unilaminar epithelium1.61e-09148
skeletal muscle tissue1.77e-0962
striated muscle tissue1.77e-0962
myotome1.77e-0962
multi-tissue structure2.10e-09342
anatomical cluster4.44e-09373
epithelial tube4.85e-09117
muscle tissue5.40e-0964
musculature5.40e-0964
musculature of body5.40e-0964
somite7.88e-0971
presomitic mesoderm7.88e-0971
presumptive segmental plate7.88e-0971
dermomyotome7.88e-0971
trunk paraxial mesoderm7.88e-0971
dense mesenchyme tissue1.36e-0873
anatomical system1.53e-08624
anatomical group1.65e-08625
multi-cellular organism2.05e-08656
paraxial mesoderm2.17e-0872
presumptive paraxial mesoderm2.17e-0872
epithelial vesicle2.54e-0878
vasculature4.70e-0878
vascular system4.70e-0878
embryo8.83e-08592
systemic artery1.63e-0733
systemic arterial system1.63e-0733
epithelial tube open at both ends1.78e-0759
blood vessel1.78e-0759
blood vasculature1.78e-0759
vascular cord1.78e-0759
reproductive structure4.25e-0759
reproductive system4.25e-0759
Disease
Ontology termp-valuen
cell type cancer4.37e-13143
disease of cellular proliferation8.09e-10239
cancer1.80e-08235
reproductive organ cancer2.69e-0829
carcinoma6.08e-08106
female reproductive organ cancer8.82e-0827
ovarian cancer4.91e-0714


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.

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