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Coexpression cluster:C3800


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Full id: C3800_Hepatocyte_colon_small_Intestinal_testicular_liver_adenocarcinoma

Phase1 CAGE Peaks


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
germ line cell1.46e-327
germ cell1.46e-327
metabolising cell1.51e-1312
endopolyploid cell1.51e-1312
parenchymal cell1.51e-1312
polyploid cell1.51e-1312
endodermal cell1.18e-0758
intestinal epithelial cell2.00e-074
Uber Anatomy
Ontology termp-valuen
gastrointestinal system3.87e-1925
large intestine5.03e-1511
digestive tract diverticulum3.42e-1323
small intestine2.41e-124
digestive gland5.54e-1219
liver bud5.54e-1219
epithelium of foregut-midgut junction5.69e-1225
anatomical boundary5.69e-1225
hepatobiliary system5.69e-1225
foregut-midgut junction5.69e-1225
septum transversum5.69e-1225
subdivision of digestive tract6.71e-11118
digestive system7.43e-11145
digestive tract7.43e-11145
primitive gut7.43e-11145
gut epithelium2.56e-1054
hepatic diverticulum2.83e-1022
liver primordium2.83e-1022
endoderm-derived structure1.65e-09160
presumptive endoderm1.65e-09160
epithelial sac5.64e-0925
vermiform appendix6.52e-081
intestinal mucosa2.00e-074
wall of intestine2.00e-074
gastrointestinal system mucosa2.00e-074
gastrointestinal system epithelium2.00e-074
intestinal epithelium2.00e-074
exocrine gland3.96e-0731
exocrine system3.96e-0731
Ontology termp-valuen
germ cell and embryonal cancer2.11e-1322
germ cell cancer2.11e-1322

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



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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)


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.