Coexpression cluster:C713

Full id: C713_skeletal_heart_Renal_aorta_Fibroblast_Smooth_mature

Phase1 CAGE Peaks

Hg19::chr5:150004188..150004308,+	p1@SYNPO
Hg19::chr5:150027636..150027663,+	p2@AB384087
Hg19::chr5:150027742..150027754,+	p3@AB384087
Hg19::chr5:150027815..150027828,+	p1@AB384087
Hg19::chr5:150027838..150027865,+	p6@SYNPO
Hg19::chr5:150027893..150027907,+	p15@SYNPO
Hg19::chr5:150027978..150028011,+	p13@SYNPO
Hg19::chr5:150028043..150028054,+	p23@SYNPO
Hg19::chr5:150028060..150028075,+	p22@SYNPO
Hg19::chr5:150028080..150028174,-	p@chr5:150028080..150028174 -
Hg19::chr5:150028254..150028266,+	p16@SYNPO
Hg19::chr5:150029105..150029117,+	p@chr5:150029105..150029117 +

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:0043204	perikaryon	0.0027375485694101
GO:0043197	dendritic spine	0.0027375485694101
GO:0043025	cell soma	0.00857765218415165
GO:0030425	dendrite	0.00857765218415165
GO:0044463	cell projection part	0.00857765218415165
GO:0043005	neuron projection	0.0106460222143726
GO:0005923	tight junction	0.0106460222143726
GO:0043296	apical junction complex	0.0106460222143726
GO:0016327	apicolateral plasma membrane	0.0106460222143726
GO:0045211	postsynaptic membrane	0.0131554417363319
GO:0044456	synapse part	0.0131554417363319
GO:0005911	intercellular junction	0.0131554417363319
GO:0015629	actin cytoskeleton	0.0204012548148896
GO:0042995	cell projection	0.0204012548148896
GO:0030054	cell junction	0.0249801306958672
GO:0003779	actin binding	0.0249801306958672
GO:0008092	cytoskeletal protein binding	0.0323674860265547

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
mesodermal cell	4.45e-11	119
endothelial cell of vascular tree	6.97e-09	24
lining cell	1.44e-08	57
barrier cell	1.44e-08	57
endothelial cell	4.22e-08	35
vascular associated smooth muscle cell	2.53e-07	32
meso-epithelial cell	3.60e-07	44
embryonic cell	4.63e-07	248
blood vessel endothelial cell	9.98e-07	18
embryonic blood vessel endothelial progenitor cell	9.98e-07	18

Uber Anatomy

Ontology term	p-value	n
anatomical conduit	8.20e-36	241
anatomical cluster	9.67e-35	286
adult organism	2.16e-30	115
tube	3.83e-30	194
epithelium	9.84e-27	309
cell layer	1.84e-26	312
multi-tissue structure	1.64e-21	347
splanchnic layer of lateral plate mesoderm	2.50e-20	84
vessel	5.94e-19	69
vasculature	3.19e-18	79
vascular system	3.19e-18	79
epithelial tube	4.17e-18	118
organism subdivision	7.61e-18	365
blood vessel	2.13e-17	60
epithelial tube open at both ends	2.13e-17	60
blood vasculature	2.13e-17	60
vascular cord	2.13e-17	60
circulatory system	3.29e-17	113
neural plate	2.50e-16	86
presumptive neural plate	2.50e-16	86
cardiovascular system	9.13e-16	110
neurectoderm	1.29e-15	90
neural tube	6.38e-15	57
neural rod	6.38e-15	57
future spinal cord	6.38e-15	57
neural keel	6.38e-15	57
anterior neural tube	8.79e-14	42
regional part of forebrain	1.73e-13	41
forebrain	1.73e-13	41
future forebrain	1.73e-13	41
regional part of brain	2.82e-13	59
anatomical system	5.05e-13	625
brain	5.18e-13	69
future brain	5.18e-13	69
anatomical group	6.39e-13	626
multi-cellular organism	1.06e-12	659
cerebral hemisphere	1.10e-12	32
head	1.10e-12	123
telencephalon	1.48e-12	34
artery	2.16e-12	42
arterial blood vessel	2.16e-12	42
arterial system	2.16e-12	42
gray matter	2.68e-12	34
brain grey matter	2.68e-12	34
pre-chordal neural plate	3.57e-12	61
anterior region of body	4.45e-12	129
craniocervical region	4.45e-12	129
regional part of telencephalon	4.57e-12	33
central nervous system	8.34e-12	82
unilaminar epithelium	5.05e-11	138
primary circulatory organ	6.70e-11	27
regional part of cerebral cortex	7.43e-11	22
regional part of nervous system	1.75e-10	94
nervous system	1.75e-10	94
compound organ	2.59e-10	69
neocortex	1.10e-09	20
cerebral cortex	1.17e-09	25
pallium	1.17e-09	25
embryonic structure	2.06e-09	605
developing anatomical structure	2.06e-09	605
germ layer	2.33e-09	604
embryonic tissue	2.33e-09	604
presumptive structure	2.33e-09	604
epiblast (generic)	2.33e-09	604
heart	3.56e-09	24
primitive heart tube	3.56e-09	24
primary heart field	3.56e-09	24
anterior lateral plate mesoderm	3.56e-09	24
heart tube	3.56e-09	24
heart primordium	3.56e-09	24
cardiac mesoderm	3.56e-09	24
cardiogenic plate	3.56e-09	24
heart rudiment	3.56e-09	24
embryo	4.11e-09	612
systemic artery	8.95e-09	33
systemic arterial system	8.95e-09	33
ectoderm-derived structure	4.98e-08	169
ectoderm	7.62e-08	173
presumptive ectoderm	7.62e-08	173
organ part	2.74e-07	219
endothelium	9.98e-07	18
blood vessel endothelium	9.98e-07	18
cardiovascular system endothelium	9.98e-07	18

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
ZNF263#10127	8	5.48122775800712	1.50025403478449e-05	0.000355456059752399

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.