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Coexpression cluster:C812: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000365!9.38e-16!5;UBERON:0005910!4.65e-13!6;UBERON:0004119!1.42e-11!160;UBERON:0000925!1.42e-11!160;UBERON:0006595!1.42e-11!160;UBERON:0003729!1.25e-10!13;UBERON:0001949!2.18e-10!3;UBERON:0004815!6.47e-10!3;UBERON:0002031!6.47e-10!3;UBERON:0001004!9.34e-10!74;UBERON:0003102!4.17e-09!99;UBERON:0007196!1.28e-08!15;UBERON:0001558!1.28e-08!15;UBERON:0000344!2.32e-08!20;UBERON:0001708!5.48e-08!4;UBERON:0008895!5.48e-08!4;UBERON:0000161!8.95e-08!36;UBERON:0005911!1.85e-07!82;UBERON:0000033!2.37e-07!56;UBERON:0000153!2.48e-07!62;UBERON:0007811!2.48e-07!62;UBERON:0002419!3.05e-07!2;UBERON:0007771!3.05e-07!2;UBERON:0003297!3.05e-07!2;UBERON:0001821!3.05e-07!2;UBERON:0003487!3.05e-07!2;UBERON:0001820!3.05e-07!2;UBERON:0005089!3.05e-07!2;UBERON:0005088!3.05e-07!2;UBERON:0003343!3.58e-07!4;UBERON:0004785!3.58e-07!4
|ontology_enrichment_uberon=UBERON:0000365!9.38e-16!5;UBERON:0005910!4.65e-13!6;UBERON:0004119!1.42e-11!160;UBERON:0000925!1.42e-11!160;UBERON:0006595!1.42e-11!160;UBERON:0003729!1.25e-10!13;UBERON:0001949!2.18e-10!3;UBERON:0004815!6.47e-10!3;UBERON:0002031!6.47e-10!3;UBERON:0001004!9.34e-10!74;UBERON:0003102!4.17e-09!99;UBERON:0007196!1.28e-08!15;UBERON:0001558!1.28e-08!15;UBERON:0000344!2.32e-08!20;UBERON:0001708!5.48e-08!4;UBERON:0008895!5.48e-08!4;UBERON:0000161!8.95e-08!36;UBERON:0005911!1.85e-07!82;UBERON:0000033!2.37e-07!56;UBERON:0000153!2.48e-07!62;UBERON:0007811!2.48e-07!62;UBERON:0002419!3.05e-07!2;UBERON:0007771!3.05e-07!2;UBERON:0003297!3.05e-07!2;UBERON:0001821!3.05e-07!2;UBERON:0003487!3.05e-07!2;UBERON:0001820!3.05e-07!2;UBERON:0005089!3.05e-07!2;UBERON:0005088!3.05e-07!2;UBERON:0003343!3.58e-07!4;UBERON:0004785!3.58e-07!4
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}}
}}

Revision as of 14:29, 26 November 2012


Full id: C812_Prostate_Urothelial_Mallassezderived_Sebocyte_Keratinocyte_Gingival_Small



Phase1 CAGE Peaks

Hg19::chr12:10516306..10516316,+p1@ENST00000500682
p1@uc001qya.1
Hg19::chr12:28116049..28116068,-p@chr12:28116049..28116068
-
Hg19::chr12:28116055..28116080,+p@chr12:28116055..28116080
+
Hg19::chr12:28116097..28116116,-p@chr12:28116097..28116116
-
Hg19::chr12:28116221..28116235,-p@chr12:28116221..28116235
-
Hg19::chr12:28116255..28116266,-p@chr12:28116255..28116266
-
Hg19::chr12:28116320..28116345,-p@chr12:28116320..28116345
-
Hg19::chr12:28116496..28116507,-p@chr12:28116496..28116507
-
Hg19::chr12:28116565..28116580,-p@chr12:28116565..28116580
-
Hg19::chr4:78558101..78558113,-p@chr4:78558101..78558113
-


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
urothelium9.38e-165
transitional epithelium4.65e-136
endoderm-derived structure1.42e-11160
endoderm1.42e-11160
presumptive endoderm1.42e-11160
mouth mucosa1.25e-1013
gingival epithelium2.18e-103
lower respiratory tract epithelium6.47e-103
epithelium of bronchus6.47e-103
respiratory system9.34e-1074
surface structure4.17e-0999
tracheobronchial tree1.28e-0815
lower respiratory tract1.28e-0815
mucosa2.32e-0820
jaw skeleton5.48e-084
splanchnocranium5.48e-084
orifice8.95e-0836
endo-epithelium1.85e-0782
head2.37e-0756
anterior region of body2.48e-0762
craniocervical region2.48e-0762
skin gland3.05e-072
epidermis gland3.05e-072
gland of integumental system3.05e-072
sebaceous gland3.05e-072
skin sebaceous gland3.05e-072
sweat gland3.05e-072
sweat gland placode3.05e-072
sebaceous gland placode3.05e-072
mucosa of oral region3.58e-074
respiratory system mucosa3.58e-074
Disease
Ontology termp-valuen
squamous cell carcinoma3.88e-0914


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.