Coexpression cluster:C1887

Full id: C1887_lung_Endothelial_adipose_heart_spleen_Hepatocyte_penis

Phase1 CAGE Peaks

Hg19::chr2:197226832..197226859,-	p4@HECW2
Hg19::chr7:22259789..22259809,-	p7@RAPGEF5
Hg19::chr7:22259826..22259838,-	p11@RAPGEF5
Hg19::chr7:22259845..22259864,-	p5@RAPGEF5
Hg19::chr7:22259867..22259876,-	p13@RAPGEF5

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:0017034	Rap guanyl-nucleotide exchange factor activity	0.00565162999117592
GO:0030742	GTP-dependent protein binding	0.015539923662318

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>

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Cell Type

Ontology term	p-value	n
endothelial cell of vascular tree	5.63e-22	24
endothelial cell	9.68e-19	35
blood vessel endothelial cell	2.47e-16	18
embryonic blood vessel endothelial progenitor cell	2.47e-16	18
meso-epithelial cell	2.84e-13	44
endothelial cell of artery	9.02e-09	9
lining cell	2.06e-08	57
barrier cell	2.06e-08	57
lymphangioblast	3.25e-07	6
endothelial cell of lymphatic vessel	3.25e-07	6
vascular lymphangioblast	3.25e-07	6
mesodermal cell	5.11e-07	119

Uber Anatomy

Ontology term	p-value	n
adult organism	1.99e-53	115
anatomical conduit	6.44e-40	241
tube	1.69e-37	194
anatomical cluster	3.62e-36	286
splanchnic layer of lateral plate mesoderm	9.36e-25	84
vessel	2.30e-24	69
epithelium	7.79e-23	309
cell layer	3.63e-22	312
neural tube	3.32e-21	57
neural rod	3.32e-21	57
future spinal cord	3.32e-21	57
neural keel	3.32e-21	57
vasculature	6.29e-21	79
vascular system	6.29e-21	79
blood vessel	1.94e-20	60
epithelial tube open at both ends	1.94e-20	60
blood vasculature	1.94e-20	60
vascular cord	1.94e-20	60
epithelial tube	4.23e-20	118
circulatory system	6.88e-20	113
cardiovascular system	3.03e-18	110
regional part of brain	4.12e-17	59
anterior neural tube	1.99e-16	42
endothelium	2.47e-16	18
blood vessel endothelium	2.47e-16	18
cardiovascular system endothelium	2.47e-16	18
neural plate	8.44e-16	86
presumptive neural plate	8.44e-16	86
regional part of forebrain	1.01e-15	41
forebrain	1.01e-15	41
future forebrain	1.01e-15	41
multi-cellular organism	3.10e-15	659
anatomical system	1.39e-14	625
central nervous system	1.52e-14	82
anatomical group	1.88e-14	626
neurectoderm	2.74e-14	90
brain	1.25e-13	69
future brain	1.25e-13	69
simple squamous epithelium	3.13e-13	22
regional part of nervous system	1.00e-12	94
nervous system	1.00e-12	94
gray matter	1.09e-12	34
brain grey matter	1.09e-12	34
telencephalon	1.81e-12	34
regional part of telencephalon	4.93e-12	33
squamous epithelium	1.07e-11	25
cerebral hemisphere	2.04e-11	32
multi-tissue structure	2.45e-11	347
neocortex	7.64e-11	20
artery	8.62e-11	42
arterial blood vessel	8.62e-11	42
arterial system	8.62e-11	42
regional part of cerebral cortex	1.51e-10	22
embryo	4.32e-10	612
organism subdivision	1.01e-09	365
pre-chordal neural plate	1.31e-09	61
embryonic structure	1.38e-09	605
developing anatomical structure	1.38e-09	605
germ layer	3.35e-09	604
embryonic tissue	3.35e-09	604
presumptive structure	3.35e-09	604
epiblast (generic)	3.35e-09	604
primary circulatory organ	6.65e-09	27
endothelial tube	9.02e-09	9
arterial system endothelium	9.02e-09	9
endothelium of artery	9.02e-09	9
cerebral cortex	1.44e-08	25
pallium	1.44e-08	25
unilaminar epithelium	1.55e-08	138
compound organ	5.41e-08	69
anterior region of body	8.59e-08	129
craniocervical region	8.59e-08	129
lymphoid system	1.80e-07	10
systemic artery	2.06e-07	33
systemic arterial system	2.06e-07	33
heart	3.81e-07	24
primitive heart tube	3.81e-07	24
primary heart field	3.81e-07	24
anterior lateral plate mesoderm	3.81e-07	24
heart tube	3.81e-07	24
heart primordium	3.81e-07	24
cardiac mesoderm	3.81e-07	24
cardiogenic plate	3.81e-07	24
heart rudiment	3.81e-07	24
ectoderm-derived structure	4.78e-07	169
head	6.78e-07	123

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)
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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

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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

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This analysis result is provided for C0 - C305 clusters.