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Coexpression cluster:C3500

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Full id: C3500_cervical_malignant_squamous_amniotic_endometrial_ductal_epithelioid



Phase1 CAGE Peaks

Hg19::chr15:56311466..56311511,+p@chr15:56311466..56311511
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Hg19::chr15:56311515..56311555,+p@chr15:56311515..56311555
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Hg19::chr15:56395351..56395354,+p@chr15:56395351..56395354
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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
epithelial cell5.34e-29253
epithelial cell of alimentary canal8.83e-1520
endo-epithelial cell9.91e-1442
endodermal cell1.33e-1258
squamous epithelial cell4.58e-0763
Uber Anatomy
Ontology termp-valuen
larynx5.97e-149
mucosa6.93e-1120
endoderm-derived structure5.90e-10160
endoderm5.90e-10160
presumptive endoderm5.90e-10160
digestive system6.00e-09145
digestive tract6.00e-09145
primitive gut6.00e-09145
epithelium of mucosa1.64e-088
mucosa of oral region5.55e-084
respiratory system mucosa5.55e-084
organ component layer3.86e-0766
respiratory primordium5.28e-0738
endoderm of foregut5.28e-0738
upper respiratory tract5.53e-0719
mouth mucosa6.61e-0713
respiratory system7.05e-0774
Disease
Ontology termp-valuen
carcinoma1.75e-45106
cell type cancer1.53e-40143
disease of cellular proliferation9.91e-36239
cancer1.13e-34235
adenocarcinoma3.82e-1625
squamous cell carcinoma4.99e-1414
disease of anatomical entity9.31e-0839
organ system cancer1.90e-07137


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.