Coexpression cluster:C2447

Full id: C2447_Renal_lung_Endothelial_adipose_heart_Hepatic_mature

Phase1 CAGE Peaks

Hg19::chr17:8213567..8213579,+	p3@ARHGEF15
Hg19::chr6:32191834..32191863,-	p1@NOTCH4
Hg19::chrX:50386616..50386637,-	p3@SHROOM4
Hg19::chrX:50386648..50386697,-	p2@SHROOM4

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:0007420	brain development	0.00609307390107638
GO:0045602	negative regulation of endothelial cell differentiation	0.00609307390107638
GO:0007417	central nervous system development	0.00609307390107638
GO:0045601	regulation of endothelial cell differentiation	0.00609307390107638
GO:0050890	cognition	0.00974834428639365
GO:0050785	advanced glycation end-product receptor activity	0.01015422637206
GO:0031941	filamentous actin	0.0148902349752388
GO:0001569	patterning of blood vessels	0.0148902349752388
GO:0045446	endothelial cell differentiation	0.0148902349752388
GO:0030879	mammary gland development	0.0164614748358857
GO:0007399	nervous system development	0.0164614748358857
GO:0005884	actin filament	0.0235411650519551
GO:0009880	embryonic pattern specification	0.0235411650519551
GO:0048754	branching morphogenesis of a tube	0.0235411650519551
GO:0001709	cell fate determination	0.0235411650519551
GO:0001763	morphogenesis of a branching structure	0.0243507781932401
GO:0048513	organ development	0.0268345622791575
GO:0048732	gland development	0.0311020580358017
GO:0007219	Notch signaling pathway	0.0320235181964748
GO:0045596	negative regulation of cell differentiation	0.0395315759761216
GO:0045165	cell fate commitment	0.0406579582486095
GO:0048731	system development	0.0406579582486095
GO:0051093	negative regulation of developmental process	0.0407070975971648
GO:0035239	tube morphogenesis	0.0425486448918009

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	9.91e-22	24
endothelial cell	1.79e-21	35
meso-epithelial cell	6.05e-17	44
blood vessel endothelial cell	1.24e-16	18
embryonic blood vessel endothelial progenitor cell	1.24e-16	18
lining cell	7.69e-10	57
barrier cell	7.69e-10	57
endothelial cell of artery	3.32e-09	9
vein endothelial cell	6.59e-07	6

Uber Anatomy

Ontology term	p-value	n
adult organism	2.41e-60	115
anatomical conduit	4.40e-27	241
tube	2.36e-24	194
neural tube	3.73e-24	57
neural rod	3.73e-24	57
future spinal cord	3.73e-24	57
neural keel	3.73e-24	57
anatomical cluster	2.62e-22	286
anterior neural tube	9.15e-20	42
neural plate	5.17e-19	86
presumptive neural plate	5.17e-19	86
regional part of forebrain	6.01e-19	41
forebrain	6.01e-19	41
future forebrain	6.01e-19	41
regional part of brain	6.05e-19	59
neurectoderm	6.77e-19	90
central nervous system	3.90e-18	82
endothelium	1.24e-16	18
blood vessel endothelium	1.24e-16	18
cardiovascular system endothelium	1.24e-16	18
brain	1.25e-16	69
future brain	1.25e-16	69
cell layer	5.78e-16	312
gray matter	5.95e-16	34
brain grey matter	5.95e-16	34
regional part of nervous system	7.36e-16	94
nervous system	7.36e-16	94
epithelium	8.41e-16	309
telencephalon	1.14e-15	34
regional part of telencephalon	3.28e-15	33
cerebral hemisphere	1.27e-14	32
pre-chordal neural plate	2.77e-13	61
simple squamous epithelium	3.45e-13	22
regional part of cerebral cortex	1.02e-12	22
multi-cellular organism	3.97e-12	659
squamous epithelium	1.15e-11	25
neocortex	1.22e-11	20
cerebral cortex	4.52e-11	25
pallium	4.52e-11	25
anatomical system	7.54e-11	625
anatomical group	1.01e-10	626
anterior region of body	1.53e-10	129
craniocervical region	1.53e-10	129
head	1.22e-09	123
endothelial tube	3.32e-09	9
arterial system endothelium	3.32e-09	9
endothelium of artery	3.32e-09	9
embryo	4.81e-09	612
organ part	7.91e-09	219
vessel	1.56e-08	69
ectoderm	3.50e-08	173
presumptive ectoderm	3.50e-08	173
embryonic structure	4.19e-08	605
developing anatomical structure	4.19e-08	605
ectoderm-derived structure	4.98e-08	169
circulatory system	6.29e-08	113
germ layer	8.19e-08	604
embryonic tissue	8.19e-08	604
presumptive structure	8.19e-08	604
epiblast (generic)	8.19e-08	604
compound organ	8.54e-08	69
epithelial tube	9.21e-08	118
multi-tissue structure	9.36e-08	347
splanchnic layer of lateral plate mesoderm	3.71e-07	84
cardiovascular system	9.04e-07	110

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.