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|ontology_enrichment_disease=DOID:305!3.10e-21!106;DOID:0050687!2.73e-17!143;DOID:162!1.95e-09!235;DOID:14566!5.19e-09!239;DOID:299!2.97e-08!25
|ontology_enrichment_disease=DOID:305!3.10e-21!106;DOID:0050687!2.73e-17!143;DOID:162!1.95e-09!235;DOID:14566!5.19e-09!239;DOID:299!2.97e-08!25
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|ontology_enrichment_uberon=UBERON:0004921!3.27e-18!129;UBERON:0004185!3.27e-18!129;UBERON:0001007!2.72e-17!155;UBERON:0001555!2.72e-17!155;UBERON:0007026!2.72e-17!155;UBERON:0004119!6.92e-16!169;UBERON:0000925!6.92e-16!169;UBERON:0006595!6.92e-16!169;UBERON:0001737!1.74e-15!9;UBERON:0000077!1.82e-15!130;UBERON:0009497!3.07e-14!25;UBERON:0000015!3.07e-14!25;UBERON:0002423!3.07e-14!25;UBERON:0006235!3.07e-14!25;UBERON:0004161!3.07e-14!25;UBERON:0001041!4.51e-14!98;UBERON:0008835!5.39e-12!22;UBERON:0003894!5.39e-12!22;UBERON:0009854!2.35e-11!23;UBERON:0001048!4.06e-11!168;UBERON:0007499!3.11e-10!25;UBERON:0009856!9.73e-10!26;UBERON:0002107!1.51e-09!19;UBERON:0006925!1.51e-09!19;UBERON:0008836!1.51e-09!19;UBERON:0003929!2.85e-09!54;UBERON:0005911!9.10e-09!82;UBERON:0008947!1.55e-08!38;UBERON:0003258!1.55e-08!38;UBERON:0000466!2.69e-08!126;UBERON:0001557!2.88e-08!19;UBERON:0005409!1.05e-07!35;UBERON:0005172!1.63e-07!55;UBERON:0005173!1.63e-07!55;UBERON:0000160!2.83e-07!27;UBERON:0000473!3.77e-07!8
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}}
}}

Revision as of 19:15, 8 August 2012


Full id: C3557_signet_Prostate_Intestinal_lung_colon_rectal_mesothelioma



Phase1 CAGE Peaks

Hg19::chr16:29840929..29840977,+p@chr16:29840929..29840977
+
Hg19::chr16:29841227..29841239,+p@chr16:29841227..29841239
+
Hg19::chr16:29841250..29841261,+p@chr16:29841250..29841261
+


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>

Cell Type
Ontology termp-valuen
metabolising cell6.54e-1312
endopolyploid cell6.54e-1312
parenchymal cell6.54e-1312
polyploid cell6.54e-1312
hepatocyte6.54e-1312
germ line cell1.22e-117
germ cell1.22e-117
epithelial cell1.86e-09254
endodermal cell2.92e-0859
Uber Anatomy
Ontology termp-valuen
subdivision of digestive tract3.27e-18129
endodermal part of digestive tract3.27e-18129
digestive system2.72e-17155
digestive tract2.72e-17155
primitive gut2.72e-17155
endoderm-derived structure6.92e-16169
endoderm6.92e-16169
presumptive endoderm6.92e-16169
larynx1.74e-159
mixed endoderm/mesoderm-derived structure1.82e-15130
epithelium of foregut-midgut junction3.07e-1425
anatomical boundary3.07e-1425
hepatobiliary system3.07e-1425
foregut-midgut junction3.07e-1425
septum transversum3.07e-1425
foregut4.51e-1498
hepatic diverticulum5.39e-1222
liver primordium5.39e-1222
digestive tract diverticulum2.35e-1123
primordium4.06e-11168
epithelial sac3.11e-1025
sac9.73e-1026
liver1.51e-0919
digestive gland1.51e-0919
liver bud1.51e-0919
gut epithelium2.85e-0954
endo-epithelium9.10e-0982
respiratory primordium1.55e-0838
endoderm of foregut1.55e-0838
immaterial anatomical entity2.69e-08126
upper respiratory tract2.88e-0819
gastrointestinal system1.05e-0735
abdomen element1.63e-0755
abdominal segment element1.63e-0755
intestine2.83e-0727
testis3.77e-078
Disease
Ontology termp-valuen
carcinoma3.10e-21106
cell type cancer2.73e-17143
cancer1.95e-09235
disease of cellular proliferation5.19e-09239
adenocarcinoma2.97e-0825


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.

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