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Coexpression cluster:C2046: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007023!3.24e-28!114;UBERON:0004638!3.74e-18!18;UBERON:0001986!3.74e-18!18;UBERON:0004852!3.74e-18!18;UBERON:0001009!1.23e-16!112;UBERON:0004535!4.90e-15!109;UBERON:0000477!6.05e-14!373;UBERON:0000487!2.74e-13!22;UBERON:0000468!2.95e-13!656;UBERON:0004872!3.25e-13!83;UBERON:0000025!3.01e-12!192;UBERON:0000467!3.40e-12!624;UBERON:0004111!4.46e-12!240;UBERON:0000480!4.59e-12!625;UBERON:0000055!4.63e-12!68;UBERON:0006914!6.47e-12!25;UBERON:0002049!5.05e-11!78;UBERON:0007798!5.05e-11!78;UBERON:0003915!8.66e-10!9;UBERON:0004700!8.66e-10!9;UBERON:0001917!8.66e-10!9;UBERON:0007500!1.62e-09!59;UBERON:0001981!1.62e-09!59;UBERON:0004537!1.62e-09!59;UBERON:0006965!1.62e-09!59;UBERON:0003103!3.18e-09!68;UBERON:0007100!8.59e-09!27;UBERON:0000922!1.07e-08!592;UBERON:0003914!2.22e-08!117;UBERON:0003081!2.98e-08!203;UBERON:0005423!6.67e-08!581;UBERON:0000923!9.03e-08!560;UBERON:0010316!9.03e-08!560;UBERON:0005291!9.03e-08!560;UBERON:0006598!9.03e-08!560;UBERON:0010317!9.03e-08!560;UBERON:0002532!9.03e-08!560;UBERON:0002050!9.60e-08!564;UBERON:0010314!4.54e-07!132;UBERON:0000948!6.03e-07!24;UBERON:0005498!6.03e-07!24;UBERON:0004140!6.03e-07!24;UBERON:0009881!6.03e-07!24;UBERON:0004141!6.03e-07!24;UBERON:0003084!6.03e-07!24;UBERON:0007005!6.03e-07!24;UBERON:0004139!6.03e-07!24;UBERON:0004291!6.03e-07!24
|ontology_enrichment_uberon=UBERON:0007023!3.24e-28!114;UBERON:0004638!3.74e-18!18;UBERON:0001986!3.74e-18!18;UBERON:0004852!3.74e-18!18;UBERON:0001009!1.23e-16!112;UBERON:0004535!4.90e-15!109;UBERON:0000477!6.05e-14!373;UBERON:0000487!2.74e-13!22;UBERON:0000468!2.95e-13!656;UBERON:0004872!3.25e-13!83;UBERON:0000025!3.01e-12!192;UBERON:0000467!3.40e-12!624;UBERON:0004111!4.46e-12!240;UBERON:0000480!4.59e-12!625;UBERON:0000055!4.63e-12!68;UBERON:0006914!6.47e-12!25;UBERON:0002049!5.05e-11!78;UBERON:0007798!5.05e-11!78;UBERON:0003915!8.66e-10!9;UBERON:0004700!8.66e-10!9;UBERON:0001917!8.66e-10!9;UBERON:0007500!1.62e-09!59;UBERON:0001981!1.62e-09!59;UBERON:0004537!1.62e-09!59;UBERON:0006965!1.62e-09!59;UBERON:0003103!3.18e-09!68;UBERON:0007100!8.59e-09!27;UBERON:0000922!1.07e-08!592;UBERON:0003914!2.22e-08!117;UBERON:0003081!2.98e-08!203;UBERON:0005423!6.67e-08!581;UBERON:0000923!9.03e-08!560;UBERON:0010316!9.03e-08!560;UBERON:0005291!9.03e-08!560;UBERON:0006598!9.03e-08!560;UBERON:0010317!9.03e-08!560;UBERON:0002532!9.03e-08!560;UBERON:0002050!9.60e-08!564;UBERON:0010314!4.54e-07!132;UBERON:0000948!6.03e-07!24;UBERON:0005498!6.03e-07!24;UBERON:0004140!6.03e-07!24;UBERON:0009881!6.03e-07!24;UBERON:0004141!6.03e-07!24;UBERON:0003084!6.03e-07!24;UBERON:0007005!6.03e-07!24;UBERON:0004139!6.03e-07!24;UBERON:0004291!6.03e-07!24
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}}
}}

Revision as of 15:15, 26 November 2012


Full id: C2046_Lymphatic_Endothelial_Neutrophils_Renal_heart_Fibroblast_Hepatic



Phase1 CAGE Peaks

Hg19::chr10:129785536..129785551,+p6@PTPRE
Hg19::chr5:176433333..176433349,-p11@UIMC1
Hg19::chr5:176433350..176433388,-p6@UIMC1
Hg19::chrX:15518923..15518936,+p1@BMX


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
adult organism3.24e-28114
blood vessel endothelium3.74e-1818
endothelium3.74e-1818
cardiovascular system endothelium3.74e-1818
circulatory system1.23e-16112
cardiovascular system4.90e-15109
anatomical cluster6.05e-14373
simple squamous epithelium2.74e-1322
multi-cellular organism2.95e-13656
splanchnic layer of lateral plate mesoderm3.25e-1383
tube3.01e-12192
anatomical system3.40e-12624
anatomical conduit4.46e-12240
anatomical group4.59e-12625
vessel4.63e-1268
squamous epithelium6.47e-1225
vasculature5.05e-1178
vascular system5.05e-1178
endothelial tube8.66e-109
arterial system endothelium8.66e-109
endothelium of artery8.66e-109
epithelial tube open at both ends1.62e-0959
blood vessel1.62e-0959
blood vasculature1.62e-0959
vascular cord1.62e-0959
compound organ3.18e-0968
primary circulatory organ8.59e-0927
embryo1.07e-08592
epithelial tube2.22e-08117
lateral plate mesoderm2.98e-08203
developing anatomical structure6.67e-08581
germ layer9.03e-08560
germ layer / neural crest9.03e-08560
embryonic tissue9.03e-08560
presumptive structure9.03e-08560
germ layer / neural crest derived structure9.03e-08560
epiblast (generic)9.03e-08560
embryonic structure9.60e-08564
structure with developmental contribution from neural crest4.54e-07132
heart6.03e-0724
primitive heart tube6.03e-0724
primary heart field6.03e-0724
anterior lateral plate mesoderm6.03e-0724
heart tube6.03e-0724
heart primordium6.03e-0724
cardiac mesoderm6.03e-0724
cardiogenic plate6.03e-0724
heart rudiment6.03e-0724


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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