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|ontology_enrichment_disease=DOID:14566!3.65e-31!239;DOID:162!8.23e-30!235;DOID:0050687!1.34e-16!143;DOID:305!6.79e-12!106;DOID:0050686!1.13e-10!137;DOID:2531!1.09e-07!51;DOID:0060083!1.09e-07!51
|ontology_enrichment_disease=DOID:14566!3.65e-31!239;DOID:162!8.23e-30!235;DOID:0050687!1.34e-16!143;DOID:305!6.79e-12!106;DOID:0050686!1.13e-10!137;DOID:2531!1.09e-07!51;DOID:0060083!1.09e-07!51
|ontology_enrichment_uberon=
|ontology_enrichment_uberon=
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}}
}}

Revision as of 20:38, 8 August 2012


Full id: C645_testicular_acute_diffuse_medulloblastoma_Prostate_carcinosarcoma_neuroectodermal



Phase1 CAGE Peaks

Hg19::chr10:120801539..120801558,-p5@EIF3A
Hg19::chr10:120801648..120801714,-p4@EIF3A
Hg19::chr10:120802000..120802019,-p7@EIF3A
Hg19::chr10:120803632..120803647,-p@chr10:120803632..120803647
-
Hg19::chr10:120809438..120809499,-p3@EIF3A
Hg19::chr10:120810137..120810172,-p1@BC014625
Hg19::chr10:120810174..120810192,-p3@BC014625
Hg19::chr10:120810791..120810826,-p@chr10:120810791..120810826
-
Hg19::chr10:120810828..120810844,-p@chr10:120810828..120810844
-
Hg19::chr10:120816287..120816317,-p@chr10:120816287..120816317
-
Hg19::chr10:120816324..120816355,-p@chr10:120816324..120816355
-
Hg19::chr10:120816475..120816555,-p@chr10:120816475..120816555
-
Hg19::chr10:120819141..120819169,-p6@EIF3A


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


GO IDGO nameFDR corrected p-value
GO:0005852eukaryotic translation initiation factor 3 complex0.0172200635817732
GO:0006446regulation of translational initiation0.0319380666431179
GO:0006413translational initiation0.0319380666431179
GO:0003743translation initiation factor activity0.0319380666431179
GO:0022618protein-RNA complex assembly0.0319380666431179
GO:0006417regulation of translation0.0319380666431179
GO:0031326regulation of cellular biosynthetic process0.0319380666431179
GO:0008135translation factor activity, nucleic acid binding0.0319380666431179
GO:0009889regulation of biosynthetic process0.0319380666431179
GO:0022613ribonucleoprotein complex biogenesis and assembly0.032585658777817



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><br><br>disease_data<br>


Disease
Ontology termp-valuen
disease of cellular proliferation3.65e-31239
cancer8.23e-30235
cell type cancer1.34e-16143
carcinoma6.79e-12106
organ system cancer1.13e-10137
hematologic cancer1.09e-0751
immune system cancer1.09e-0751


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


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.