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|ontology_enrichment_disease=DOID:162!7.93e-33!235;DOID:14566!1.65e-31!239;DOID:2531!1.02e-20!51;DOID:0060083!1.02e-20!51;DOID:1240!2.03e-18!39;DOID:0050686!5.71e-18!137;DOID:8692!1.39e-16!31;DOID:0050687!5.45e-16!143;DOID:305!2.73e-11!106;DOID:3095!8.61e-07!22;DOID:2994!8.61e-07!22
|ontology_enrichment_disease=DOID:162!7.93e-33!235;DOID:14566!1.65e-31!239;DOID:2531!1.02e-20!51;DOID:0060083!1.02e-20!51;DOID:1240!2.03e-18!39;DOID:0050686!5.71e-18!137;DOID:8692!1.39e-16!31;DOID:0050687!5.45e-16!143;DOID:305!2.73e-11!106;DOID:3095!8.61e-07!22;DOID:2994!8.61e-07!22
|ontology_enrichment_uberon=
|ontology_enrichment_uberon=
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}}
}}

Revision as of 19:46, 8 August 2012


Full id: C4143_Mast_acute_hepatoblastoma_embryonic_rhabdomyosarcoma_testicular_cord



Phase1 CAGE Peaks

Hg19::chr2:170440902..170440927,+p3@PPIG
Hg19::chr2:71357744..71357791,+p1@MPHOSPH10
Hg19::chr6:144164455..144164564,+p1@LTV1


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:0008380RNA splicing0.0024019489850783
GO:0006396RNA processing0.00566423892359164
GO:0016018cyclosporin A binding0.00566423892359164
GO:0031981nuclear lumen0.00566423892359164
GO:0031974membrane-enclosed lumen0.00693705742595231
GO:0043233organelle lumen0.00693705742595231
GO:0005732small nucleolar ribonucleoprotein complex0.00693705742595231
GO:0044428nuclear part0.00719345594856585
GO:0008144drug binding0.00719345594856585
GO:0031202RNA splicing factor activity, transesterification mechanism0.00744489806851175
GO:0044452nucleolar part0.0120616571778071
GO:0016363nuclear matrix0.0126734263056732
GO:0006364rRNA processing0.0170965459175916
GO:0016072rRNA metabolic process0.0170965459175916
GO:0016607nuclear speck0.0176895637176626
GO:0003755peptidyl-prolyl cis-trans isomerase activity0.0176895637176626
GO:0016859cis-trans isomerase activity0.0176895637176626
GO:0016604nuclear body0.018885880737988
GO:0042254ribosome biogenesis and assembly0.018885880737988
GO:0005730nucleolus0.0266486946639436
GO:0042277peptide binding0.0319735175896541
GO:0022613ribonucleoprotein complex biogenesis and assembly0.0329026406580026
GO:0044446intracellular organelle part0.0329026406580026
GO:0044422organelle part0.0329026406580026
GO:0016070RNA metabolic process0.0329026406580026
GO:0016853isomerase activity0.0389244521400519
GO:0006457protein folding0.0411644597921784



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><br>disease_data<br>


Disease
Ontology termp-valuen
cancer7.93e-33235
disease of cellular proliferation1.65e-31239
hematologic cancer1.02e-2051
immune system cancer1.02e-2051
leukemia2.03e-1839
organ system cancer5.71e-18137
myeloid leukemia1.39e-1631
cell type cancer5.45e-16143
carcinoma2.73e-11106
germ cell and embryonal cancer8.61e-0722
germ cell cancer8.61e-0722


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.