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Coexpression cluster:C1984: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0003102!1.32e-18!95;UBERON:0000914!4.11e-13!83;UBERON:0002329!4.11e-13!83;UBERON:0003077!4.11e-13!83;UBERON:0003059!4.11e-13!83;UBERON:0007282!4.11e-13!83;UBERON:0009618!4.11e-13!83;UBERON:0007285!4.11e-13!83;UBERON:0002199!1.06e-12!45;UBERON:0002416!1.06e-12!45;UBERON:0000486!1.91e-11!82;UBERON:0002049!1.56e-10!79;UBERON:0007798!1.56e-10!79;UBERON:0004290!2.20e-10!70;UBERON:0002097!2.32e-10!40;UBERON:0000055!7.10e-10!69;UBERON:0000468!1.70e-09!659;UBERON:0002100!2.05e-09!216;UBERON:0004923!6.20e-09!57;UBERON:0000475!7.68e-09!365;UBERON:0005256!4.40e-08!143;UBERON:0004872!1.04e-07!84;UBERON:0000490!2.15e-07!138;UBERON:0002385!2.50e-07!63;UBERON:0001015!2.50e-07!63;UBERON:0000383!2.50e-07!63;UBERON:0001134!3.39e-07!61;UBERON:0002036!3.39e-07!61;UBERON:0003082!3.39e-07!61;UBERON:0001981!3.45e-07!60;UBERON:0007500!3.45e-07!60;UBERON:0004537!3.45e-07!60;UBERON:0006965!3.45e-07!60;UBERON:0003104!7.01e-07!238;UBERON:0009142!7.01e-07!238
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}}
}}

Revision as of 17:50, 8 August 2012


Full id: C1984_Olfactory_mesenchymal_basal_leiomyoma_normal_tenocyte_Myoblast



Phase1 CAGE Peaks

Hg19::chr7:116199077..116199114,+p@chr7:116199077..116199114
+
Hg19::chr7:116199144..116199170,+p@chr7:116199144..116199170
+
Hg19::chr7:116199291..116199310,+p@chr7:116199291..116199310
+
Hg19::chr7:116199802..116199867,+p9@CAV1
Hg19::chr7:116200019..116200043,+p13@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
non-terminally differentiated cell3.07e-15180
embryonic cell2.70e-14248
fibroblast6.26e-1475
mesodermal cell2.73e-13119
endothelial cell of vascular tree2.73e-0924
skin fibroblast2.75e-0923
squamous epithelial cell3.60e-0962
fat cell2.81e-0815
lining cell6.30e-0857
barrier cell6.30e-0857
muscle precursor cell5.24e-0757
myoblast5.24e-0757
multi-potent skeletal muscle stem cell5.24e-0757
Uber Anatomy
Ontology termp-valuen
surface structure1.32e-1895
somite4.11e-1383
paraxial mesoderm4.11e-1383
presomitic mesoderm4.11e-1383
presumptive segmental plate4.11e-1383
trunk paraxial mesoderm4.11e-1383
presumptive paraxial mesoderm4.11e-1383
integument1.06e-1245
integumental system1.06e-1245
multilaminar epithelium1.91e-1182
vasculature1.56e-1079
vascular system1.56e-1079
dermomyotome2.20e-1070
skin of body2.32e-1040
vessel7.10e-1069
multi-cellular organism1.70e-09659
trunk2.05e-09216
organ component layer6.20e-0957
organism subdivision7.68e-09365
trunk mesenchyme4.40e-08143
splanchnic layer of lateral plate mesoderm1.04e-0784
unilaminar epithelium2.15e-07138
muscle tissue2.50e-0763
musculature2.50e-0763
musculature of body2.50e-0763
skeletal muscle tissue3.39e-0761
striated muscle tissue3.39e-0761
myotome3.39e-0761
blood vessel3.45e-0760
epithelial tube open at both ends3.45e-0760
blood vasculature3.45e-0760
vascular cord3.45e-0760
mesenchyme7.01e-07238
entire embryonic mesenchyme7.01e-07238


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.