Coexpression cluster:C3293

Full id: C3293_Mesenchymal_Smooth_Synoviocyte_tenocyte_leiomyoma_Cardiac_Fibroblast

Phase1 CAGE Peaks

Hg19::chr12:53491413..53491430,+	p2@IGFBP6
Hg19::chr12:53491441..53491458,+	p1@IGFBP6
Hg19::chr12:53491743..53491754,+	p1@AK074416

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:0005520	insulin-like growth factor binding	0.0246000908311046
GO:0019838	growth factor binding	0.0246000908311046
GO:0001558	regulation of cell growth	0.0246000908311046
GO:0016049	cell growth	0.0246000908311046
GO:0040008	regulation of growth	0.0246000908311046
GO:0008361	regulation of cell size	0.0246000908311046
GO:0008285	negative regulation of cell proliferation	0.0246000908311046
GO:0042127	regulation of cell proliferation	0.0365830684092782
GO:0000902	cell morphogenesis	0.0365830684092782
GO:0032989	cellular structure morphogenesis	0.0365830684092782
GO:0005615	extracellular space	0.0367361356411162
GO:0008283	cell proliferation	0.0475146198830409

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	7.98e-37	180
muscle precursor cell	3.76e-23	57
myoblast	3.76e-23	57
multi-potent skeletal muscle stem cell	3.76e-23	57
contractile cell	5.26e-23	59
muscle cell	2.28e-22	54
fibroblast	4.02e-21	75
smooth muscle cell	3.63e-18	42
smooth muscle myoblast	3.63e-18	42
electrically responsive cell	5.73e-18	60
electrically active cell	5.73e-18	60
mesodermal cell	2.32e-17	119
vascular associated smooth muscle cell	3.24e-14	32
embryonic cell	1.02e-11	248
skin fibroblast	1.99e-08	23
cardiocyte	4.41e-07	16

Uber Anatomy

Ontology term	p-value	n
somite	7.65e-26	83
paraxial mesoderm	7.65e-26	83
presomitic mesoderm	7.65e-26	83
presumptive segmental plate	7.65e-26	83
trunk paraxial mesoderm	7.65e-26	83
presumptive paraxial mesoderm	7.65e-26	83
organism subdivision	3.49e-24	365
dermomyotome	3.53e-24	70
trunk mesenchyme	5.99e-23	143
skeletal muscle tissue	1.08e-22	61
striated muscle tissue	1.08e-22	61
myotome	1.08e-22	61
muscle tissue	1.22e-22	63
musculature	1.22e-22	63
musculature of body	1.22e-22	63
trunk	2.07e-22	216
multilaminar epithelium	2.21e-22	82
multi-tissue structure	5.50e-22	347
mesenchyme	3.76e-19	238
entire embryonic mesenchyme	3.76e-19	238
cell layer	2.03e-15	312
unilaminar epithelium	8.86e-15	138
epithelium	8.96e-15	309
splanchnic layer of lateral plate mesoderm	2.31e-14	84
multi-cellular organism	4.08e-13	659
epithelial tube	8.48e-13	118
artery	1.16e-12	42
arterial blood vessel	1.16e-12	42
arterial system	1.16e-12	42
systemic artery	8.31e-12	33
systemic arterial system	8.31e-12	33
surface structure	9.47e-12	95
anatomical cluster	1.97e-11	286
vasculature	2.96e-11	79
vascular system	2.96e-11	79
anatomical system	5.05e-11	625
blood vessel	7.15e-11	60
epithelial tube open at both ends	7.15e-11	60
blood vasculature	7.15e-11	60
vascular cord	7.15e-11	60
anatomical group	7.66e-11	626
anatomical conduit	1.11e-09	241
vessel	3.56e-09	69
mesoderm	8.31e-09	448
mesoderm-derived structure	8.31e-09	448
presumptive mesoderm	8.31e-09	448
compound organ	4.14e-08	69
circulatory system	5.55e-08	113
cardiovascular system	6.92e-08	110
heart	1.65e-07	24
primitive heart tube	1.65e-07	24
primary heart field	1.65e-07	24
anterior lateral plate mesoderm	1.65e-07	24
heart tube	1.65e-07	24
heart primordium	1.65e-07	24
cardiac mesoderm	1.65e-07	24
cardiogenic plate	1.65e-07	24
heart rudiment	1.65e-07	24
embryonic structure	2.05e-07	605
developing anatomical structure	2.05e-07	605
embryo	2.23e-07	612
primary circulatory organ	2.61e-07	27
germ layer	2.67e-07	604
embryonic tissue	2.67e-07	604
presumptive structure	2.67e-07	604
epiblast (generic)	2.67e-07	604

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)
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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.