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Coexpression cluster:C3312: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007023!3.50e-37!114;UBERON:0004638!4.62e-32!18;UBERON:0001986!4.62e-32!18;UBERON:0004852!4.62e-32!18;UBERON:0000487!2.25e-25!22;UBERON:0006914!9.02e-22!25;UBERON:0000055!8.34e-18!68;UBERON:0003915!1.11e-16!9;UBERON:0004700!1.11e-16!9;UBERON:0001917!1.11e-16!9;UBERON:0004111!1.98e-15!240;UBERON:0002049!1.46e-14!78;UBERON:0007798!1.46e-14!78;UBERON:0000025!2.08e-13!192;UBERON:0001009!9.09e-13!112;UBERON:0000477!2.27e-12!373;UBERON:0007500!1.43e-11!59;UBERON:0001981!1.43e-11!59;UBERON:0004537!1.43e-11!59;UBERON:0006965!1.43e-11!59;UBERON:0004872!2.32e-11!83;UBERON:0001473!3.00e-11!8;UBERON:0004536!3.00e-11!8;UBERON:0006558!3.00e-11!8;UBERON:0004535!3.30e-10!109;UBERON:0003914!9.89e-10!117;UBERON:0001638!2.59e-09!9;UBERON:0003920!2.59e-09!9;UBERON:0004582!2.59e-09!9;UBERON:0002465!8.18e-09!10;UBERON:0003887!8.48e-09!12;UBERON:0010523!8.57e-09!3;UBERON:0001915!8.57e-09!3;UBERON:0001982!8.57e-09!3;UBERON:0005103!9.08e-08!8;UBERON:0000083!9.08e-08!8;UBERON:0009201!9.08e-08!8;UBERON:0006553!9.08e-08!8;UBERON:0003074!9.08e-08!8;UBERON:0003060!9.08e-08!8;UBERON:0004876!1.17e-07!11;UBERON:0000483!4.14e-07!306;UBERON:0000119!6.28e-07!309;UBERON:0000080!7.57e-07!9;UBERON:0002120!7.57e-07!9;UBERON:0004875!7.57e-07!9;UBERON:0005721!7.57e-07!9;UBERON:0005754!7.57e-07!9;UBERON:0007297!7.57e-07!9
|ontology_enrichment_uberon=UBERON:0007023!3.50e-37!114;UBERON:0004638!4.62e-32!18;UBERON:0001986!4.62e-32!18;UBERON:0004852!4.62e-32!18;UBERON:0000487!2.25e-25!22;UBERON:0006914!9.02e-22!25;UBERON:0000055!8.34e-18!68;UBERON:0003915!1.11e-16!9;UBERON:0004700!1.11e-16!9;UBERON:0001917!1.11e-16!9;UBERON:0004111!1.98e-15!240;UBERON:0002049!1.46e-14!78;UBERON:0007798!1.46e-14!78;UBERON:0000025!2.08e-13!192;UBERON:0001009!9.09e-13!112;UBERON:0000477!2.27e-12!373;UBERON:0007500!1.43e-11!59;UBERON:0001981!1.43e-11!59;UBERON:0004537!1.43e-11!59;UBERON:0006965!1.43e-11!59;UBERON:0004872!2.32e-11!83;UBERON:0001473!3.00e-11!8;UBERON:0004536!3.00e-11!8;UBERON:0006558!3.00e-11!8;UBERON:0004535!3.30e-10!109;UBERON:0003914!9.89e-10!117;UBERON:0001638!2.59e-09!9;UBERON:0003920!2.59e-09!9;UBERON:0004582!2.59e-09!9;UBERON:0002465!8.18e-09!10;UBERON:0003887!8.48e-09!12;UBERON:0010523!8.57e-09!3;UBERON:0001915!8.57e-09!3;UBERON:0001982!8.57e-09!3;UBERON:0005103!9.08e-08!8;UBERON:0000083!9.08e-08!8;UBERON:0009201!9.08e-08!8;UBERON:0006553!9.08e-08!8;UBERON:0003074!9.08e-08!8;UBERON:0003060!9.08e-08!8;UBERON:0004876!1.17e-07!11;UBERON:0000483!4.14e-07!306;UBERON:0000119!6.28e-07!309;UBERON:0000080!7.57e-07!9;UBERON:0002120!7.57e-07!9;UBERON:0004875!7.57e-07!9;UBERON:0005721!7.57e-07!9;UBERON:0005754!7.57e-07!9;UBERON:0007297!7.57e-07!9
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}}
}}

Revision as of 16:03, 26 November 2012


Full id: C3312_Endothelial_Renal_Hepatic_heart_umbilical_Lymphatic_adipose



Phase1 CAGE Peaks

Hg19::chr12:6143894..6143914,-p@chr12:6143894..6143914
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Hg19::chr12:6167137..6167153,-p@chr12:6167137..6167153
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Hg19::chr20:62680671..62680679,-p2@SOX18


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 organism3.50e-37114
blood vessel endothelium4.62e-3218
endothelium4.62e-3218
cardiovascular system endothelium4.62e-3218
simple squamous epithelium2.25e-2522
squamous epithelium9.02e-2225
vessel8.34e-1868
endothelial tube1.11e-169
arterial system endothelium1.11e-169
endothelium of artery1.11e-169
anatomical conduit1.98e-15240
vasculature1.46e-1478
vascular system1.46e-1478
tube2.08e-13192
circulatory system9.09e-13112
anatomical cluster2.27e-12373
epithelial tube open at both ends1.43e-1159
blood vessel1.43e-1159
blood vasculature1.43e-1159
vascular cord1.43e-1159
splanchnic layer of lateral plate mesoderm2.32e-1183
lymphatic vessel3.00e-118
lymph vasculature3.00e-118
lymphatic part of lymphoid system3.00e-118
cardiovascular system3.30e-10109
epithelial tube9.89e-10117
vein2.59e-099
venous blood vessel2.59e-099
venous system2.59e-099
lymphoid system8.18e-0910
intraembryonic coelom8.48e-0912
microcirculatory vessel8.57e-093
endothelium of capillary8.57e-093
capillary8.57e-093
mesonephric epithelium9.08e-088
mesonephric tubule9.08e-088
nephric duct9.08e-088
renal duct9.08e-088
mesonephric duct9.08e-088
pronephric duct9.08e-088
urogenital ridge1.17e-0711
epithelium4.14e-07306
cell layer6.28e-07309
mesonephros7.57e-079
pronephros7.57e-079
nephrogenic cord7.57e-079
pronephric mesoderm7.57e-079
rostral part of nephrogenic cord7.57e-079
presumptive pronephric mesoderm7.57e-079


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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