Coexpression cluster:C797

Full id: C797_mesenchymal_skeletal_Endothelial_Pericytes_Skeletal_Astrocyte_left

Phase1 CAGE Peaks

Hg19::chr11:17741206..17741215,+	p6@MYOD1
Hg19::chr11:17741228..17741243,+	p4@MYOD1
Hg19::chr1:156641398..156641410,-	p@chr1:156641398..156641410 -
Hg19::chr1:156641522..156641541,-	p@chr1:156641522..156641541 -
Hg19::chr1:156641620..156641633,-	p@chr1:156641620..156641633 -
Hg19::chr1:156641913..156641932,-	p3@NES
Hg19::chr1:156642431..156642448,-	p5@NES
Hg19::chr1:156642464..156642497,-	p4@NES
Hg19::chr1:156642538..156642550,-	p10@NES
Hg19::chr1:203139551..203139560,-	p@chr1:203139551..203139560 -

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:0048625	myoblast cell fate commitment	0.00777087685934379
GO:0007518	myoblast cell fate determination	0.00777087685934379
GO:0045445	myoblast differentiation	0.026461784800824
GO:0003705	RNA polymerase II transcription factor activity, enhancer binding	0.026461784800824
GO:0001709	cell fate determination	0.026461784800824
GO:0048731	system development	0.026461784800824
GO:0048741	skeletal muscle fiber development	0.026461784800824
GO:0048747	muscle fiber development	0.026461784800824
GO:0042692	muscle cell differentiation	0.026461784800824
GO:0048856	anatomical structure development	0.0306211131946604
GO:0007519	skeletal muscle development	0.0306211131946604
GO:0045165	cell fate commitment	0.0306211131946604
GO:0007275	multicellular organismal development	0.0309883796995485
GO:0014706	striated muscle development	0.032522933917594

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
non-terminally differentiated cell	2.97e-17	180
mesodermal cell	2.67e-10	119
endothelial cell	5.18e-10	35
neurectodermal cell	6.40e-10	59
endothelial cell of vascular tree	8.76e-10	24
embryonic cell	9.74e-10	248
electrically responsive cell	6.53e-09	60
electrically active cell	6.53e-09	60
blood vessel endothelial cell	1.20e-08	18
embryonic blood vessel endothelial progenitor cell	1.20e-08	18
contractile cell	5.02e-08	59
muscle precursor cell	9.40e-08	57
myoblast	9.40e-08	57
multi-potent skeletal muscle stem cell	9.40e-08	57
meso-epithelial cell	1.51e-07	44
fibroblast	3.19e-07	75
cell of skeletal muscle	8.15e-07	9

Uber Anatomy

Ontology term	p-value	n
cell layer	1.39e-20	312
epithelium	1.20e-19	309
anatomical cluster	1.03e-17	286
anatomical conduit	1.26e-16	241
tube	2.46e-15	194
epithelial tube	2.19e-13	118
anatomical group	4.59e-13	626
vasculature	7.19e-13	79
vascular system	7.19e-13	79
anatomical system	9.78e-13	625
organism subdivision	3.70e-12	365
multi-cellular organism	3.89e-12	659
trunk mesenchyme	8.90e-12	143
splanchnic layer of lateral plate mesoderm	1.12e-11	84
vessel	1.44e-11	69
unilaminar epithelium	1.44e-11	138
circulatory system	3.60e-11	113
multi-tissue structure	4.50e-11	347
blood vessel	6.95e-11	60
epithelial tube open at both ends	6.95e-11	60
blood vasculature	6.95e-11	60
vascular cord	6.95e-11	60
cardiovascular system	2.78e-10	110
somite	3.21e-10	83
paraxial mesoderm	3.21e-10	83
presomitic mesoderm	3.21e-10	83
presumptive segmental plate	3.21e-10	83
trunk paraxial mesoderm	3.21e-10	83
presumptive paraxial mesoderm	3.21e-10	83
dermomyotome	8.35e-10	70
muscle tissue	3.71e-09	63
musculature	3.71e-09	63
musculature of body	3.71e-09	63
skeletal muscle tissue	6.74e-09	61
striated muscle tissue	6.74e-09	61
myotome	6.74e-09	61
endothelium	1.20e-08	18
blood vessel endothelium	1.20e-08	18
cardiovascular system endothelium	1.20e-08	18
embryo	3.42e-08	612
neural plate	4.49e-08	86
presumptive neural plate	4.49e-08	86
central nervous system	1.23e-07	82
compound organ	1.26e-07	69
regional part of nervous system	1.30e-07	94
nervous system	1.30e-07	94
ectoderm-derived structure	2.11e-07	169
neurectoderm	3.22e-07	90
artery	4.66e-07	42
arterial blood vessel	4.66e-07	42
arterial system	4.66e-07	42
ectoderm	7.35e-07	173
presumptive ectoderm	7.35e-07	173
primary circulatory organ	8.97e-07	27

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.