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Coexpression cluster:C3700: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000119!3.57e-20!312;UBERON:0000483!2.28e-19!309;UBERON:0000481!5.38e-14!347;UBERON:0000475!8.77e-13!365;UBERON:0000924!2.50e-11!173;UBERON:0006601!2.50e-11!173;UBERON:0004121!1.02e-10!169;UBERON:0002049!6.22e-10!79;UBERON:0007798!6.22e-10!79;UBERON:0000025!6.80e-10!194;UBERON:0000064!9.10e-10!219;UBERON:0000073!3.22e-09!94;UBERON:0001016!3.22e-09!94;UBERON:0000477!6.20e-09!286;UBERON:0004111!1.72e-08!241;UBERON:0004211!2.19e-08!16;UBERON:0001285!2.19e-08!16;UBERON:0007684!2.19e-08!16;UBERON:0003220!2.19e-08!16;UBERON:0004208!2.19e-08!16;UBERON:0000490!4.51e-08!138;UBERON:0002100!5.60e-08!216;UBERON:0006555!5.75e-08!17;UBERON:0005103!5.75e-08!17;UBERON:0000083!5.75e-08!17;UBERON:0009201!5.75e-08!17;UBERON:0004819!5.75e-08!17;UBERON:0006553!5.75e-08!17;UBERON:0003074!5.75e-08!17;UBERON:0003060!5.75e-08!17;UBERON:0005743!1.40e-07!86;UBERON:0000922!1.88e-07!612;UBERON:0000080!2.19e-07!18;UBERON:0002120!2.19e-07!18;UBERON:0004875!2.19e-07!18;UBERON:0005721!2.19e-07!18;UBERON:0005754!2.19e-07!18;UBERON:0007297!2.19e-07!18;UBERON:0001986!2.69e-07!18;UBERON:0004638!2.69e-07!18;UBERON:0004852!2.69e-07!18;UBERON:0000033!3.12e-07!123;UBERON:0005256!3.39e-07!143;UBERON:0000487!3.90e-07!22;UBERON:0003914!4.39e-07!118;UBERON:0002113!4.60e-07!27;UBERON:0003918!4.60e-07!27;UBERON:0005095!4.60e-07!27;UBERON:0007687!4.60e-07!27;UBERON:0001017!4.72e-07!82;UBERON:0001225!8.95e-07!13;UBERON:0008987!8.95e-07!13
|ontology_enrichment_uberon=UBERON:0000119!3.57e-20!312;UBERON:0000483!2.28e-19!309;UBERON:0000481!5.38e-14!347;UBERON:0000475!8.77e-13!365;UBERON:0000924!2.50e-11!173;UBERON:0006601!2.50e-11!173;UBERON:0004121!1.02e-10!169;UBERON:0002049!6.22e-10!79;UBERON:0007798!6.22e-10!79;UBERON:0000025!6.80e-10!194;UBERON:0000064!9.10e-10!219;UBERON:0000073!3.22e-09!94;UBERON:0001016!3.22e-09!94;UBERON:0000477!6.20e-09!286;UBERON:0004111!1.72e-08!241;UBERON:0004211!2.19e-08!16;UBERON:0001285!2.19e-08!16;UBERON:0007684!2.19e-08!16;UBERON:0003220!2.19e-08!16;UBERON:0004208!2.19e-08!16;UBERON:0000490!4.51e-08!138;UBERON:0002100!5.60e-08!216;UBERON:0006555!5.75e-08!17;UBERON:0005103!5.75e-08!17;UBERON:0000083!5.75e-08!17;UBERON:0009201!5.75e-08!17;UBERON:0004819!5.75e-08!17;UBERON:0006553!5.75e-08!17;UBERON:0003074!5.75e-08!17;UBERON:0003060!5.75e-08!17;UBERON:0005743!1.40e-07!86;UBERON:0000922!1.88e-07!612;UBERON:0000080!2.19e-07!18;UBERON:0002120!2.19e-07!18;UBERON:0004875!2.19e-07!18;UBERON:0005721!2.19e-07!18;UBERON:0005754!2.19e-07!18;UBERON:0007297!2.19e-07!18;UBERON:0001986!2.69e-07!18;UBERON:0004638!2.69e-07!18;UBERON:0004852!2.69e-07!18;UBERON:0000033!3.12e-07!123;UBERON:0005256!3.39e-07!143;UBERON:0000487!3.90e-07!22;UBERON:0003914!4.39e-07!118;UBERON:0002113!4.60e-07!27;UBERON:0003918!4.60e-07!27;UBERON:0005095!4.60e-07!27;UBERON:0007687!4.60e-07!27;UBERON:0001017!4.72e-07!82;UBERON:0001225!8.95e-07!13;UBERON:0008987!8.95e-07!13
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}}
}}

Revision as of 19:23, 8 August 2012


Full id: C3700_occipital_brain_temporal_duodenum_parietal_Renal_Neurons



Phase1 CAGE Peaks

Hg19::chr17:79989519..79989570,+p1@RAC3
Hg19::chr17:79989572..79989600,+p2@RAC3
Hg19::chr17:79989607..79989618,+p4@RAC3


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>

Uber Anatomy
Ontology termp-valuen
cell layer3.57e-20312
epithelium2.28e-19309
multi-tissue structure5.38e-14347
organism subdivision8.77e-13365
ectoderm2.50e-11173
presumptive ectoderm2.50e-11173
ectoderm-derived structure1.02e-10169
vasculature6.22e-1079
vascular system6.22e-1079
tube6.80e-10194
organ part9.10e-10219
regional part of nervous system3.22e-0994
nervous system3.22e-0994
anatomical cluster6.20e-09286
anatomical conduit1.72e-08241
nephron epithelium2.19e-0816
nephron2.19e-0816
uriniferous tubule2.19e-0816
metanephric mesenchyme2.19e-0816
nephrogenic mesenchyme2.19e-0816
unilaminar epithelium4.51e-08138
trunk5.60e-08216
excretory tube5.75e-0817
mesonephric epithelium5.75e-0817
mesonephric tubule5.75e-0817
nephric duct5.75e-0817
kidney epithelium5.75e-0817
renal duct5.75e-0817
mesonephric duct5.75e-0817
pronephric duct5.75e-0817
embryo1.88e-07612
mesonephros2.19e-0718
pronephros2.19e-0718
nephrogenic cord2.19e-0718
pronephric mesoderm2.19e-0718
rostral part of nephrogenic cord2.19e-0718
presumptive pronephric mesoderm2.19e-0718
endothelium2.69e-0718
blood vessel endothelium2.69e-0718
cardiovascular system endothelium2.69e-0718
head3.12e-07123
trunk mesenchyme3.39e-07143
simple squamous epithelium3.90e-0722
epithelial tube4.39e-07118
kidney4.60e-0727
kidney mesenchyme4.60e-0727
kidney rudiment4.60e-0727
kidney field4.60e-0727
central nervous system4.72e-0782
cortex of kidney8.95e-0713
renal parenchyma8.95e-0713


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.

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