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Coexpression cluster:C1515

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Full id: C1515_Endothelial_schwannoma_Renal_cerebellum_lung_heart_diaphragm



Phase1 CAGE Peaks

Hg19::chr3:34262215..34262222,+p@chr3:34262215..34262222
+
Hg19::chr6:76203218..76203267,-p2@FILIP1
Hg19::chr8:16424975..16425011,-p3@MSR1
Hg19::chr8:16425014..16425019,-p13@MSR1
Hg19::chr8:16425043..16425061,-p5@MSR1
Hg19::chr8:16425067..16425095,-p7@MSR1


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


GO IDGO nameFDR corrected p-value
GO:0006898receptor-mediated endocytosis0.0301424702696338
GO:0005044scavenger receptor activity0.0301424702696338
GO:0005319lipid transporter activity0.0301424702696338
GO:0006817phosphate transport0.0309274304329055
GO:0010324membrane invagination0.0309274304329055
GO:0006897endocytosis0.0309274304329055
GO:0015698inorganic anion transport0.033439302955375
GO:0016044membrane organization and biogenesis0.033439302955375
GO:0006820anion transport0.0338056176982351



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
endothelial cell of vascular tree7.89e-6124
endothelial cell4.55e-5736
meso-epithelial cell2.18e-4445
blood vessel endothelial cell3.81e-3918
embryonic blood vessel endothelial progenitor cell3.81e-3918
lining cell4.98e-3358
barrier cell4.98e-3358
lymphangioblast4.17e-246
endothelial cell of lymphatic vessel4.17e-246
vascular lymphangioblast4.17e-246
endothelial cell of artery3.26e-209
mesodermal cell9.44e-17121
aortic endothelial cell6.73e-166
capillary endothelial cell4.65e-133
fenestrated cell7.35e-135
glomerular endothelial cell7.35e-135
endothelial cell of umbilical vein3.37e-123
squamous epithelial cell7.66e-1263
vein endothelial cell2.92e-106
glomerular cell3.41e-097
kidney corpuscule cell3.41e-097
thoracic aorta endothelial cell5.21e-092
embryonic cell4.53e-08250
epithelial cell3.33e-07253
Uber Anatomy
Ontology termp-valuen
blood vessel endothelium3.81e-3918
endothelium3.81e-3918
cardiovascular system endothelium3.81e-3918
simple squamous epithelium2.07e-3122
squamous epithelium3.11e-2725
vessel2.91e-2268
endothelial tube3.26e-209
arterial system endothelium3.26e-209
endothelium of artery3.26e-209
vasculature1.08e-1878
vascular system1.08e-1878
lymphatic vessel6.63e-188
lymph vasculature6.63e-188
lymphatic part of lymphoid system6.63e-188
lymphoid system3.53e-1410
microcirculatory vessel4.65e-133
endothelium of capillary4.65e-133
capillary4.65e-133
epithelial tube open at both ends7.29e-1359
blood vessel7.29e-1359
blood vasculature7.29e-1359
vascular cord7.29e-1359
cardiovascular system7.87e-12109
circulatory system2.26e-11112
anatomical conduit4.06e-11240
epithelial tube2.55e-09117
primitive nephron3.41e-097
renal glomerulus3.41e-097
renal corpuscle3.41e-097
glomerular capsule3.41e-097
metanephric mesenchyme3.41e-097
glomerular tuft3.41e-097
S-shaped body3.41e-097
renal vesicle3.41e-097
comma-shaped body3.41e-097
segment of aorta5.21e-092
thoracic aorta5.21e-092
splanchnic layer of lateral plate mesoderm4.32e-0883
mesonephric epithelium4.81e-088
mesonephric tubule4.81e-088
nephric duct4.81e-088
renal duct4.81e-088
mesonephric duct4.81e-088
pronephric duct4.81e-088
tube8.63e-08192
anatomical cluster9.58e-08373
umbilical vein1.75e-075
mesonephros3.78e-079
pronephros3.78e-079
nephrogenic cord3.78e-079
pronephric mesoderm3.78e-079
rostral part of nephrogenic cord3.78e-079
presumptive pronephric mesoderm3.78e-079
vein7.50e-079
venous blood vessel7.50e-079
venous system7.50e-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)

{{{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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
FOS#235357.498296090745349.22669120642035e-050.00134359509607827
JUN#3725510.42735766028031.82465747415735e-050.000415537291634364



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.