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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000924!1.82e-12!173;UBERON:0006601!1.82e-12!173;UBERON:0004121!5.21e-12!169;UBERON:0000033!9.64e-11!123;UBERON:0000475!2.08e-10!365;UBERON:0000153!4.08e-10!129;UBERON:0007811!4.08e-10!129;UBERON:0000489!1.01e-07!32;UBERON:0002113!1.11e-07!27;UBERON:0003918!1.11e-07!27;UBERON:0005095!1.11e-07!27;UBERON:0007687!1.11e-07!27;UBERON:0000058!1.50e-07!26;UBERON:0000073!1.95e-07!94;UBERON:0001016!1.95e-07!94;UBERON:0006554!1.96e-07!44;UBERON:0001008!2.42e-07!45;UBERON:0002346!2.71e-07!90;UBERON:0001444!4.13e-07!48;UBERON:0009773!4.19e-07!12;UBERON:0001231!4.19e-07!12;UBERON:0004810!4.19e-07!12;UBERON:0004211!4.25e-07!16;UBERON:0001285!4.25e-07!16;UBERON:0007684!4.25e-07!16;UBERON:0003220!4.25e-07!16;UBERON:0004208!4.25e-07!16;UBERON:0000481!4.27e-07!347;UBERON:0006555!4.71e-07!17;UBERON:0005103!4.71e-07!17;UBERON:0000083!4.71e-07!17;UBERON:0009201!4.71e-07!17;UBERON:0004819!4.71e-07!17;UBERON:0006553!4.71e-07!17;UBERON:0003074!4.71e-07!17;UBERON:0003060!4.71e-07!17;UBERON:0005743!6.55e-07!86;UBERON:0003075!6.75e-07!86;UBERON:0007284!6.75e-07!86;UBERON:0003056!9.48e-07!61
|ontology_enrichment_uberon=UBERON:0000924!1.82e-12!173;UBERON:0006601!1.82e-12!173;UBERON:0004121!5.21e-12!169;UBERON:0000033!9.64e-11!123;UBERON:0000475!2.08e-10!365;UBERON:0000153!4.08e-10!129;UBERON:0007811!4.08e-10!129;UBERON:0000489!1.01e-07!32;UBERON:0002113!1.11e-07!27;UBERON:0003918!1.11e-07!27;UBERON:0005095!1.11e-07!27;UBERON:0007687!1.11e-07!27;UBERON:0000058!1.50e-07!26;UBERON:0000073!1.95e-07!94;UBERON:0001016!1.95e-07!94;UBERON:0006554!1.96e-07!44;UBERON:0001008!2.42e-07!45;UBERON:0002346!2.71e-07!90;UBERON:0001444!4.13e-07!48;UBERON:0009773!4.19e-07!12;UBERON:0001231!4.19e-07!12;UBERON:0004810!4.19e-07!12;UBERON:0004211!4.25e-07!16;UBERON:0001285!4.25e-07!16;UBERON:0007684!4.25e-07!16;UBERON:0003220!4.25e-07!16;UBERON:0004208!4.25e-07!16;UBERON:0000481!4.27e-07!347;UBERON:0006555!4.71e-07!17;UBERON:0005103!4.71e-07!17;UBERON:0000083!4.71e-07!17;UBERON:0009201!4.71e-07!17;UBERON:0004819!4.71e-07!17;UBERON:0006553!4.71e-07!17;UBERON:0003074!4.71e-07!17;UBERON:0003060!4.71e-07!17;UBERON:0005743!6.55e-07!86;UBERON:0003075!6.75e-07!86;UBERON:0007284!6.75e-07!86;UBERON:0003056!9.48e-07!61
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}}

Revision as of 17:46, 8 August 2012


Full id: C1902_Renal_normal_renal_mesothelioma_clear_epidermoid_kidney



Phase1 CAGE Peaks

Hg19::chr2:31360908..31361001,-p2@GALNT14
Hg19::chr2:31361293..31361352,-p1@GALNT14
Hg19::chr2:31361362..31361383,-p3@GALNT14
Hg19::chr2:31361503..31361541,-p4@GALNT14
Hg19::chr2:31361543..31361564,-p5@GALNT14


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><br>

Cell Type
Ontology termp-valuen
epithelial cell2.73e-10254
kidney cell2.88e-0818
kidney epithelial cell2.88e-0818
kidney tubule cell4.19e-0712
nephron tubule epithelial cell4.19e-0712
epithelial cell of nephron4.25e-0716
respiratory epithelial cell4.71e-0713
Uber Anatomy
Ontology termp-valuen
ectoderm1.82e-12173
presumptive ectoderm1.82e-12173
ectoderm-derived structure5.21e-12169
head9.64e-11123
organism subdivision2.08e-10365
anterior region of body4.08e-10129
craniocervical region4.08e-10129
cavitated compound organ1.01e-0732
kidney1.11e-0727
kidney mesenchyme1.11e-0727
kidney rudiment1.11e-0727
kidney field1.11e-0727
duct1.50e-0726
regional part of nervous system1.95e-0794
nervous system1.95e-0794
urinary system structure1.96e-0744
renal system2.42e-0745
neurectoderm2.71e-0790
subdivision of head4.13e-0748
renal tubule4.19e-0712
nephron tubule4.19e-0712
nephron tubule epithelium4.19e-0712
nephron epithelium4.25e-0716
nephron4.25e-0716
uriniferous tubule4.25e-0716
metanephric mesenchyme4.25e-0716
nephrogenic mesenchyme4.25e-0716
multi-tissue structure4.27e-07347
excretory tube4.71e-0717
mesonephric epithelium4.71e-0717
mesonephric tubule4.71e-0717
nephric duct4.71e-0717
kidney epithelium4.71e-0717
renal duct4.71e-0717
mesonephric duct4.71e-0717
pronephric duct4.71e-0717
neural plate6.75e-0786
presumptive neural plate6.75e-0786
pre-chordal neural plate9.48e-0761


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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