Coexpression cluster:C2181

Full id: C2181_Smooth_Fibroblast_leiomyoma_mesenchymal_hepatic_normal_Preadipocyte

Phase1 CAGE Peaks

Hg19::chr12:106633037..106633066,-	p10@CKAP4
Hg19::chr12:106641713..106641725,-	p4@CKAP4
Hg19::chr12:106641728..106641805,-	p1@CKAP4
Hg19::chr21:46707793..46707815,-	p1@POFUT2

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:0046922	peptide-O-fucosyltransferase activity	0.00400323791041627
GO:0033116	ER-Golgi intermediate compartment membrane	0.0072041312773884
GO:0005783	endoplasmic reticulum	0.0072041312773884
GO:0006004	fucose metabolic process	0.0072041312773884
GO:0008417	fucosyltransferase activity	0.0072041312773884
GO:0005793	ER-Golgi intermediate compartment	0.0143362791822346

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
non-terminally differentiated cell	1.43e-36	180
mesodermal cell	1.98e-25	119
contractile cell	1.07e-21	59
muscle precursor cell	2.34e-21	57
myoblast	2.34e-21	57
multi-potent skeletal muscle stem cell	2.34e-21	57
muscle cell	2.13e-20	54
smooth muscle cell	2.98e-20	42
smooth muscle myoblast	2.98e-20	42
fibroblast	8.74e-20	75
somatic cell	2.04e-19	591
animal cell	1.05e-18	679
eukaryotic cell	1.05e-18	679
electrically responsive cell	4.41e-17	60
electrically active cell	4.41e-17	60
embryonic cell	4.57e-17	248
vascular associated smooth muscle cell	4.90e-17	32
multi fate stem cell	3.23e-09	430
somatic stem cell	8.64e-09	436
native cell	6.46e-08	722
stem cell	8.32e-08	444
cardiocyte	3.30e-07	16
skin fibroblast	6.10e-07	23
lining cell	9.95e-07	57
barrier cell	9.95e-07	57

Uber Anatomy

Ontology term	p-value	n
vasculature	2.31e-22	79
vascular system	2.31e-22	79
somite	1.43e-21	83
paraxial mesoderm	1.43e-21	83
presomitic mesoderm	1.43e-21	83
presumptive segmental plate	1.43e-21	83
trunk paraxial mesoderm	1.43e-21	83
presumptive paraxial mesoderm	1.43e-21	83
multilaminar epithelium	2.06e-21	82
trunk mesenchyme	2.37e-21	143
vessel	7.86e-21	69
dermomyotome	1.10e-20	70
epithelial tube	1.36e-20	118
splanchnic layer of lateral plate mesoderm	1.41e-20	84
artery	1.45e-19	42
arterial blood vessel	1.45e-19	42
arterial system	1.45e-19	42
skeletal muscle tissue	2.94e-19	61
striated muscle tissue	2.94e-19	61
myotome	2.94e-19	61
blood vessel	3.38e-19	60
epithelial tube open at both ends	3.38e-19	60
blood vasculature	3.38e-19	60
vascular cord	3.38e-19	60
cardiovascular system	5.67e-19	110
circulatory system	1.44e-18	113
muscle tissue	2.57e-18	63
musculature	2.57e-18	63
musculature of body	2.57e-18	63
unilaminar epithelium	6.06e-18	138
mesoderm	1.84e-16	448
mesoderm-derived structure	1.84e-16	448
presumptive mesoderm	1.84e-16	448
trunk	3.89e-16	216
systemic artery	1.05e-15	33
systemic arterial system	1.05e-15	33
multi-cellular organism	5.21e-15	659
anatomical group	8.54e-13	626
anatomical system	1.95e-12	625
mesenchyme	2.82e-11	238
entire embryonic mesenchyme	2.82e-11	238
aorta	8.26e-09	21
aortic system	8.26e-09	21
organism subdivision	1.84e-08	365
musculoskeletal system	2.77e-08	167
embryonic structure	2.89e-08	605
developing anatomical structure	2.89e-08	605
embryo	3.97e-08	612
germ layer	4.10e-08	604
embryonic tissue	4.10e-08	604
presumptive structure	4.10e-08	604
epiblast (generic)	4.10e-08	604
cell layer	5.15e-08	312
lateral plate mesoderm	8.14e-08	216
epithelium	8.24e-08	309
surface structure	9.89e-08	95

Disease

Ontology term	p-value	n
ovarian cancer	2.69e-07	14

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.