Coexpression cluster:C328

Full id: C328_Endothelial_Lymphatic_Renal_Hepatic_chronic_extraskeletal_adipose

Phase1 CAGE Peaks

Hg19::chr10:3477893..3477912,-	p@chr10:3477893..3477912 -
Hg19::chr12:105863737..105863745,+	p@chr12:105863737..105863745 +
Hg19::chr12:105882068..105882076,+	p@chr12:105882068..105882076 +
Hg19::chr12:105889859..105889862,+	p@chr12:105889859..105889862 +
Hg19::chr12:10794718..10794741,+	p@chr12:10794718..10794741 +
Hg19::chr12:6232421..6232447,-	p8@VWF
Hg19::chr12:6233700..6233715,-	p2@VWF
Hg19::chr12:6233743..6233756,-	p3@VWF
Hg19::chr12:71031305..71031308,-	p20@PTPRB
Hg19::chr16:77468905..77468944,-	p1@ADAMTS18
Hg19::chr16:82029551..82029560,+	p@chr16:82029551..82029560 +
Hg19::chr1:65344781..65344820,-	p3@JAK1
Hg19::chr21:39875736..39875750,+	p@chr21:39875736..39875750 +
Hg19::chr3:149051346..149051364,-	p3@TM4SF18
Hg19::chr3:149051376..149051400,-	p1@TM4SF18
Hg19::chr3:149051406..149051430,-	p2@TM4SF18
Hg19::chr3:149051444..149051476,-	p4@TM4SF18
Hg19::chr4:90815997..90816012,+	p1@MMRN1
Hg19::chr4:90816021..90816032,+	p3@MMRN1
Hg19::chr4:90816033..90816048,+	p2@MMRN1
Hg19::chr4:90857427..90857438,+	p@chr4:90857427..90857438 +
Hg19::chr6:136358591..136358656,+	p@chr6:136358591..136358656 +
Hg19::chr6:136358786..136358809,+	p12@PDE7B
Hg19::chr6:136359549..136359565,+	p2@AB384352
Hg19::chr6:136359569..136359580,+	p3@AB384352
Hg19::chr6:3753188..3753192,-	p@chr6:3753188..3753192 -
Hg19::chr6:79315735..79315760,-	p1@ENST00000449463
Hg19::chr7:47988045..47988072,-	p1@PKD1L1
Hg19::chr8:6420647..6420659,-	p3@ANGPT2
Hg19::chr8:6420759..6420775,-	p1@ANGPT2
Hg19::chr8:6420777..6420779,-	p5@ANGPT2
Hg19::chr8:6420791..6420805,-	p2@ANGPT2
Hg19::chr8:6420948..6420957,-	p4@ANGPT2
Hg19::chr8:6459787..6459796,+	p@chr8:6459787..6459796 +
Hg19::chrX:20236970..20237027,-	p4@RPS6KA3

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:0033093	Weibel-Palade body	0.015989329581669
GO:0007596	blood coagulation	0.015989329581669
GO:0050817	coagulation	0.015989329581669
GO:0007599	hemostasis	0.015989329581669
GO:0031091	platelet alpha granule	0.015989329581669
GO:0050878	regulation of body fluid levels	0.015989329581669
GO:0042060	wound healing	0.015989329581669
GO:0002020	protease binding	0.0224932504301092
GO:0005131	growth hormone receptor binding	0.0224932504301092
GO:0004718	Janus kinase activity	0.0253015549427426
GO:0001948	glycoprotein binding	0.0266751123096811
GO:0044421	extracellular region part	0.0266751123096811
GO:0004115	3',5'-cyclic-AMP phosphodiesterase activity	0.0266751123096811
GO:0022610	biological adhesion	0.0266751123096811
GO:0007155	cell adhesion	0.0266751123096811
GO:0032501	multicellular organismal process	0.0293181393445014
GO:0005102	receptor binding	0.0293181393445014
GO:0004716	receptor signaling protein tyrosine kinase activity	0.0365079860188144
GO:0051087	chaperone binding	0.0404235519267515
GO:0019865	immunoglobulin binding	0.0404235519267515
GO:0019198	transmembrane receptor protein phosphatase activity	0.041725131879665
GO:0005001	transmembrane receptor protein tyrosine phosphatase activity	0.041725131879665
GO:0005518	collagen binding	0.041725131879665
GO:0005578	proteinaceous extracellular matrix	0.0448232066429677
GO:0009611	response to wounding	0.0448232066429677
GO:0030168	platelet activation	0.0485281336967221

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	1.47e-44	24
endothelial cell	7.11e-38	36
blood vessel endothelial cell	2.66e-33	18
embryonic blood vessel endothelial progenitor cell	2.66e-33	18
meso-epithelial cell	2.59e-28	45
lining cell	7.90e-20	58
barrier cell	7.90e-20	58
endothelial cell of artery	3.77e-17	9
lymphangioblast	9.82e-13	6
endothelial cell of lymphatic vessel	9.82e-13	6
vascular lymphangioblast	9.82e-13	6
vein endothelial cell	1.84e-12	6
aortic endothelial cell	4.20e-12	6
endothelial cell of umbilical vein	3.94e-07	3
capillary endothelial cell	6.01e-07	3

Uber Anatomy

Ontology term	p-value	n
adult organism	4.98e-46	114
blood vessel endothelium	2.66e-33	18
endothelium	2.66e-33	18
cardiovascular system endothelium	2.66e-33	18
anatomical conduit	8.34e-28	240
simple squamous epithelium	4.04e-26	22
tube	3.86e-25	192
anatomical cluster	2.51e-22	373
squamous epithelium	2.96e-22	25
neural tube	1.97e-19	56
neural rod	1.97e-19	56
future spinal cord	1.97e-19	56
neural keel	1.97e-19	56
vessel	1.48e-17	68
structure with developmental contribution from neural crest	2.46e-17	132
endothelial tube	3.77e-17	9
arterial system endothelium	3.77e-17	9
endothelium of artery	3.77e-17	9
neural plate	9.18e-17	82
presumptive neural plate	9.18e-17	82
regional part of nervous system	1.76e-16	53
regional part of brain	1.76e-16	53
neurectoderm	1.62e-15	86
vasculature	3.93e-15	78
vascular system	3.93e-15	78
splanchnic layer of lateral plate mesoderm	6.40e-15	83
circulatory system	1.70e-14	112
epithelium	2.41e-14	306
cell layer	5.20e-14	309
regional part of forebrain	1.64e-13	41
forebrain	1.64e-13	41
anterior neural tube	1.64e-13	41
future forebrain	1.64e-13	41
cardiovascular system	2.84e-13	109
central nervous system	1.50e-12	81
epithelial tube open at both ends	3.31e-12	59
blood vessel	3.31e-12	59
blood vasculature	3.31e-12	59
vascular cord	3.31e-12	59
brain	6.87e-12	68
future brain	6.87e-12	68
brain grey matter	3.12e-11	34
gray matter	3.12e-11	34
ecto-epithelium	3.68e-11	104
telencephalon	5.93e-11	34
nervous system	1.79e-10	89
epithelial tube	1.80e-10	117
compound organ	9.49e-10	68
regional part of telencephalon	2.25e-09	32
multi-cellular organism	2.42e-09	656
lymphatic vessel	2.96e-09	8
lymph vasculature	2.96e-09	8
lymphatic part of lymphoid system	2.96e-09	8
cerebral hemisphere	3.14e-09	32
lymphoid system	4.12e-09	10
pre-chordal neural plate	5.40e-09	61
anatomical system	6.98e-09	624
anatomical group	7.98e-09	625
neural nucleus	2.88e-08	9
nucleus of brain	2.88e-08	9
vein	6.31e-08	9
venous blood vessel	6.31e-08	9
venous system	6.31e-08	9
posterior neural tube	2.81e-07	15
chordal neural plate	2.81e-07	15
organ system subdivision	3.48e-07	223
multi-tissue structure	5.68e-07	342
microcirculatory vessel	6.01e-07	3
endothelium of capillary	6.01e-07	3
capillary	6.01e-07	3
regional part of cerebral cortex	6.55e-07	22
embryo	8.26e-07	592
brainstem	9.46e-07	6

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
FOS#2353	9	2.31375993657285	0.0123431240034742	0.044717064236119
GATA2#2624	23	8.37524085347834	1.2167644793407e-17	2.60405052167752e-15
JUN#3725	9	3.21758464945791	0.00137609132612683	0.0089655397385752

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.