Coexpression cluster:C357

Full id: C357_Endothelial_Lymphatic_Renal_Hepatic_seminal_breast_heart

Phase1 CAGE Peaks

Hg19::chr10:45477877..45477901,+	p2@RASSF4
Hg19::chr14:51863894..51863903,-	p1@ENST00000556762
Hg19::chr15:65398647..65398656,-	p3@UBAP1L
Hg19::chr15:65935213..65935234,+	p8@SLC24A1
Hg19::chr15:65935239..65935275,+	p6@SLC24A1
Hg19::chr15:65935283..65935297,+	p11@SLC24A1
Hg19::chr18:54339814..54339822,+	p7@WDR7
Hg19::chr18:54339823..54339834,+	p8@WDR7
Hg19::chr19:42006553..42006555,-	p1@LOC100505495
Hg19::chr19:4639579..4639589,+	p2@TNFAIP8L1
Hg19::chr1:1148395..1148419,-	p@chr1:1148395..1148419 -
Hg19::chr1:214453986..214454002,+	p10@SMYD2
Hg19::chr1:94526344..94526353,-	p4@ABCA4
Hg19::chr1:94526365..94526386,-	p2@ABCA4
Hg19::chr20:62679771..62679782,-	p4@SOX18
Hg19::chr22:43042678..43042692,-	p3@CYB5R3
Hg19::chr2:127413798..127413819,+	p3@GYPC
Hg19::chr2:33661536..33661549,+	p17@RASGRP3
Hg19::chr2:71681572..71681579,-	p@chr2:71681572..71681579 -
Hg19::chr3:194868625..194868636,+	p2@ENST00000426468
Hg19::chr3:194868639..194868654,+	p1@ENST00000426468
Hg19::chr3:30560333..30560348,+	p@chr3:30560333..30560348 +
Hg19::chr3:30560368..30560379,+	p@chr3:30560368..30560379 +
Hg19::chr4:146403815..146403832,-	p1@BC035666
Hg19::chr4:146403984..146404001,-	p1@AK023324
Hg19::chr4:146404016..146404030,-	p2@AK023324
Hg19::chr4:189881560..189881604,-	p@chr4:189881560..189881604 -
Hg19::chr6:168195926..168195943,+	p1@LOC441179
Hg19::chr6:168195978..168195989,+	p3@LOC441179
Hg19::chr8:21924052..21924103,+	p6@EPB49
Hg19::chrX:107068687..107068703,+	p6@MID2

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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p.value	FDR	nGenes	nPathway	Name
2.5936681633843e-05	0.0082089597371113	2	17	{CNGB1,17} (Static Module):NA
1.73680731938346e-05	0.0082089597371113	2	14	{HMGB1,14} (Static Module):NA

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:0009416	response to light stimulus	0.025522668176794
GO:0006649	phospholipid transfer to membrane	0.025522668176794
GO:0009642	response to light intensity	0.025522668176794
GO:0019867	outer membrane	0.025522668176794
GO:0009314	response to radiation	0.025522668176794
GO:0005887	integral to plasma membrane	0.025522668176794
GO:0031226	intrinsic to plasma membrane	0.025522668176794
GO:0008273	calcium, potassium:sodium antiporter activity	0.0297804699504777
GO:0046582	Rap GTPase activator activity	0.0297804699504777
GO:0009628	response to abiotic stimulus	0.0324830039881413
GO:0007603	phototransduction, visible light	0.0324830039881413
GO:0004128	cytochrome-b5 reductase activity	0.0417498825370661
GO:0016653	oxidoreductase activity, acting on NADH or NADPH, heme protein as acceptor	0.0417498825370661
GO:0007601	visual perception	0.0417498825370661
GO:0050953	sensory perception of light stimulus	0.0417498825370661
GO:0015674	di-, tri-valent inorganic cation transport	0.0478365347063914

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	1.99e-18	35
endothelial cell of vascular tree	6.54e-17	24
meso-epithelial cell	9.65e-17	44
blood vessel endothelial cell	6.90e-13	18
embryonic blood vessel endothelial progenitor cell	6.90e-13	18
lining cell	1.02e-12	57
barrier cell	1.02e-12	57
mesodermal cell	1.48e-11	119
endothelial cell of artery	3.12e-07	9

Uber Anatomy

Ontology term	p-value	n
adult organism	1.80e-40	115
anatomical conduit	1.00e-25	241
tube	3.66e-23	194
anatomical cluster	9.17e-22	286
cell layer	1.52e-17	312
epithelium	5.82e-17	309
circulatory system	8.60e-17	113
neural tube	1.27e-16	57
neural rod	1.27e-16	57
future spinal cord	1.27e-16	57
neural keel	1.27e-16	57
regional part of brain	4.39e-16	59
cardiovascular system	1.64e-15	110
vasculature	6.37e-15	79
vascular system	6.37e-15	79
splanchnic layer of lateral plate mesoderm	1.67e-14	84
vessel	2.93e-14	69
central nervous system	1.10e-13	82
anterior neural tube	2.36e-13	42
epithelial tube	6.71e-13	118
endothelium	6.90e-13	18
blood vessel endothelium	6.90e-13	18
cardiovascular system endothelium	6.90e-13	18
regional part of forebrain	8.41e-13	41
forebrain	8.41e-13	41
future forebrain	8.41e-13	41
brain	8.62e-13	69
future brain	8.62e-13	69
neural plate	6.29e-12	86
presumptive neural plate	6.29e-12	86
gray matter	1.82e-11	34
brain grey matter	1.82e-11	34
telencephalon	3.23e-11	34
blood vessel	5.95e-11	60
epithelial tube open at both ends	5.95e-11	60
blood vasculature	5.95e-11	60
vascular cord	5.95e-11	60
regional part of telencephalon	6.25e-11	33
cerebral hemisphere	1.28e-10	32
regional part of nervous system	1.83e-10	94
nervous system	1.83e-10	94
simple squamous epithelium	3.69e-10	22
neurectoderm	7.54e-10	90
squamous epithelium	6.35e-09	25
regional part of cerebral cortex	1.19e-08	22
compound organ	3.33e-08	69
neocortex	3.86e-08	20
cerebral cortex	4.50e-08	25
pallium	4.50e-08	25
multi-cellular organism	5.15e-08	659
pre-chordal neural plate	5.28e-08	61
anatomical system	7.03e-08	625
anatomical group	9.57e-08	626
endothelial tube	3.12e-07	9
arterial system endothelium	3.12e-07	9
endothelium of artery	3.12e-07	9
anterior region of body	4.83e-07	129
craniocervical region	4.83e-07	129
lymphoid system	4.99e-07	10

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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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.