Coexpression cluster:C1506

Full id: C1506_Endothelial_Lymphatic_Hepatic_Renal_breast_heart_thyroid

Phase1 CAGE Peaks

Hg19::chr2:33661480..33661509,+	p5@RASGRP3
Hg19::chr6:49534004..49534016,+	p@chr6:49534004..49534016 +
Hg19::chr9:13432964..13432971,-	p@chr9:13432964..13432971 -
Hg19::chr9:13432977..13433050,-	p@chr9:13432977..13433050 -
Hg19::chrX:10544929..10544941,-	p14@MID1
Hg19::chrX:45060170..45060188,-	p4@CXorf36

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 ID	GO name	FDR corrected p-value
GO:0046582	Rap GTPase activator activity	0.023047035862175

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 term	p-value	n
endothelial cell of vascular tree	7.98e-26	24
endothelial cell	5.04e-23	35
blood vessel endothelial cell	1.69e-19	18
embryonic blood vessel endothelial progenitor cell	1.69e-19	18
meso-epithelial cell	1.08e-15	44
endothelial cell of artery	2.46e-10	9
lining cell	1.65e-09	57
barrier cell	1.65e-09	57
lymphangioblast	7.10e-08	6
endothelial cell of lymphatic vessel	7.10e-08	6
vascular lymphangioblast	7.10e-08	6
vein endothelial cell	1.28e-07	6
aortic endothelial cell	2.25e-07	6

Uber Anatomy

Ontology term	p-value	n
adult organism	3.13e-39	115
anatomical conduit	8.13e-31	241
anatomical cluster	3.51e-27	286
tube	2.90e-23	194
endothelium	1.69e-19	18
blood vessel endothelium	1.69e-19	18
cardiovascular system endothelium	1.69e-19	18
vessel	2.00e-18	69
epithelium	1.60e-16	309
cell layer	5.46e-16	312
splanchnic layer of lateral plate mesoderm	1.06e-15	84
simple squamous epithelium	1.70e-14	22
blood vessel	3.35e-14	60
epithelial tube open at both ends	3.35e-14	60
blood vasculature	3.35e-14	60
vascular cord	3.35e-14	60
vasculature	5.52e-14	79
vascular system	5.52e-14	79
neural tube	1.90e-13	57
neural rod	1.90e-13	57
future spinal cord	1.90e-13	57
neural keel	1.90e-13	57
anatomical system	2.41e-13	625
anatomical group	3.18e-13	626
circulatory system	3.95e-13	113
multi-cellular organism	1.06e-12	659
epithelial tube	3.41e-12	118
cardiovascular system	6.20e-12	110
squamous epithelium	7.56e-12	25
neural plate	8.36e-11	86
presumptive neural plate	8.36e-11	86
endothelial tube	2.46e-10	9
arterial system endothelium	2.46e-10	9
endothelium of artery	2.46e-10	9
regional part of brain	5.44e-10	59
multi-tissue structure	6.42e-10	347
central nervous system	9.87e-10	82
neurectoderm	1.07e-09	90
anterior neural tube	1.21e-09	42
embryo	1.38e-09	612
embryonic structure	4.89e-09	605
developing anatomical structure	4.89e-09	605
regional part of forebrain	5.67e-09	41
forebrain	5.67e-09	41
future forebrain	5.67e-09	41
brain	5.77e-09	69
future brain	5.77e-09	69
anterior region of body	6.74e-09	129
craniocervical region	6.74e-09	129
regional part of nervous system	8.28e-09	94
nervous system	8.28e-09	94
germ layer	1.11e-08	604
embryonic tissue	1.11e-08	604
presumptive structure	1.11e-08	604
epiblast (generic)	1.11e-08	604
gray matter	1.24e-08	34
brain grey matter	1.24e-08	34
telencephalon	1.34e-08	34
lymphoid system	1.88e-08	10
neocortex	2.74e-08	20
regional part of cerebral cortex	4.19e-08	22
regional part of telencephalon	4.20e-08	33
head	6.34e-08	123
cerebral hemisphere	9.94e-08	32
ectoderm-derived structure	1.05e-07	169
compound organ	1.45e-07	69
vein	2.90e-07	9
venous blood vessel	2.90e-07	9
venous system	2.90e-07	9
ectoderm	4.00e-07	173
presumptive ectoderm	4.00e-07	173
lymphatic vessel	4.71e-07	8
lymph vasculature	4.71e-07	8
lymphatic part of lymphoid system	4.71e-07	8
brainstem	5.90e-07	8
primary circulatory organ	8.66e-07	27

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	#promoters	Enrichment	p-value	q-value
JUN#3725	3	6.25641459616817	0.00848634685095487	0.0324190928258852

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.