Coexpression cluster:C784

Full id: C784_Endothelial_Lymphatic_Renal_placenta_Hepatic_chronic_acute

Phase1 CAGE Peaks

Hg19::chr10:59999608..59999621,-	p@chr10:59999608..59999621 -
Hg19::chr10:94590857..94590871,+	p4@EXOC6
Hg19::chr10:94590876..94590889,+	p6@EXOC6
Hg19::chr10:94590895..94590905,+	p8@EXOC6
Hg19::chr10:94590910..94590942,+	p3@EXOC6
Hg19::chr10:94590950..94590955,+	p13@EXOC6
Hg19::chr10:94590997..94591006,+	p11@EXOC6
Hg19::chr10:94591023..94591034,+	p7@EXOC6
Hg19::chr12:96841308..96841312,+	p@chr12:96841308..96841312 +
Hg19::chr1:78510648..78510661,+	p7@GIPC2

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0000145	exocyst	0.0153556442645342
GO:0006904	vesicle docking during exocytosis	0.0153556442645342
GO:0048278	vesicle docking	0.0153556442645342
GO:0022406	membrane docking	0.0153556442645342
GO:0044448	cell cortex part	0.0153556442645342
GO:0005938	cell cortex	0.0181941893586753
GO:0006887	exocytosis	0.0270288838613802

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
endothelial cell	7.01e-24	35
endothelial cell of vascular tree	1.08e-21	24
meso-epithelial cell	1.42e-16	44
blood vessel endothelial cell	2.16e-16	18
embryonic blood vessel endothelial progenitor cell	2.16e-16	18
lining cell	4.43e-10	57
barrier cell	4.43e-10	57
endothelial cell of artery	1.23e-08	9
myeloid cell	8.18e-08	112
common myeloid progenitor	8.18e-08	112
hematopoietic stem cell	1.15e-07	172
angioblastic mesenchymal cell	1.15e-07	172
hematopoietic oligopotent progenitor cell	4.46e-07	165
hematopoietic multipotent progenitor cell	4.46e-07	165
lymphangioblast	7.39e-07	6
endothelial cell of lymphatic vessel	7.39e-07	6
vascular lymphangioblast	7.39e-07	6
hematopoietic cell	8.20e-07	182
vein endothelial cell	8.80e-07	6

Uber Anatomy

Ontology term	p-value	n
adult organism	5.49e-21	115
endothelium	2.16e-16	18
blood vessel endothelium	2.16e-16	18
cardiovascular system endothelium	2.16e-16	18
simple squamous epithelium	8.16e-12	22
vessel	3.74e-11	69
squamous epithelium	2.02e-09	25
vasculature	2.93e-09	79
vascular system	2.93e-09	79
blood vessel	7.26e-09	60
epithelial tube open at both ends	7.26e-09	60
blood vasculature	7.26e-09	60
vascular cord	7.26e-09	60
endothelial tube	1.23e-08	9
arterial system endothelium	1.23e-08	9
endothelium of artery	1.23e-08	9
circulatory system	5.99e-08	113
splanchnic layer of lateral plate mesoderm	6.20e-08	84
cardiovascular system	1.27e-07	110
anatomical conduit	1.39e-07	241
tube	3.80e-07	194

Disease

Ontology term	p-value	n
myeloid leukemia	6.22e-14	31
leukemia	2.75e-11	39
hematologic cancer	1.54e-08	51
immune system cancer	1.54e-08	51

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

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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

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

TF	#promoters	Enrichment	p-value	q-value
EGR1#1958	6	2.99290745688608	0.00644658718507573	0.0280099479561561
ELF1#1997	7	2.98066857116528	0.00237820287046913	0.013471667277156
HEY1#23462	7	2.828077730174	0.00329539100701931	0.0170481147900777
JUN#3725	8	10.0102633538691	6.45165515708383e-08	3.94961555070737e-06
SPI1#6688	7	5.74302645596591	3.41922598863134e-05	0.00067812484433473
TAF1#6872	7	2.3401324000217	0.0104083984434833	0.0386339241937289
TBP#6908	7	2.59473948096747	0.0055886690177364	0.0252716922213098

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

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This analysis result is provided for C0 - C305 clusters.