Coexpression cluster:C315

Full id: C315_Osteoblast_Preadipocyte_mesenchymal_Smooth_Cardiac_leiomyoma_Adipocyte

Phase1 CAGE Peaks

Hg19::chr11:1774382..1774391,-	p@chr11:1774382..1774391 -
Hg19::chr11:61605283..61605303,+	p@chr11:61605283..61605303 +
Hg19::chr11:61624925..61624946,+	p10@FADS2
Hg19::chr11:61632639..61632653,+	p@chr11:61632639..61632653 +
Hg19::chr15:74219788..74219809,+	p@chr15:74219788..74219809 +
Hg19::chr15:74244185..74244207,+	p@chr15:74244185..74244207 +
Hg19::chr16:55523576..55523615,+	p@chr16:55523576..55523615 +
Hg19::chr16:57778334..57778362,+	p@chr16:57778334..57778362 +
Hg19::chr17:19288479..19288518,-	p@chr17:19288479..19288518 -
Hg19::chr17:41168059..41168088,-	p@chr17:41168059..41168088 -
Hg19::chr17:74681202..74681205,-	p@chr17:74681202..74681205 -
Hg19::chr17:76853662..76853675,-	p@chr17:76853662..76853675 -
Hg19::chr18:47984183..47984184,+	p1@ENST00000498296
Hg19::chr19:1105655..1105703,+	p@chr19:1105655..1105703 +
Hg19::chr19:1105737..1105752,+	p@chr19:1105737..1105752 +
Hg19::chr19:18652724..18652739,-	p10@FKBP8
Hg19::chr19:18897406..18897417,-	p6@COMP
Hg19::chr19:49119363..49119395,-	p3@RPL18
Hg19::chr1:1153003..1153016,-	p@chr1:1153003..1153016 -
Hg19::chr1:1164204..1164250,-	p6@SDF4
Hg19::chr1:1290694..1290708,-	p3@MXRA8
Hg19::chr1:150776569..150776581,-	p@chr1:150776569..150776581 -
Hg19::chr1:17303641..17303660,-	p@chr1:17303641..17303660 -
Hg19::chr1:19981535..19981580,+	p4@NBL1
Hg19::chr1:19983866..19983874,+	p@chr1:19983866..19983874 +
Hg19::chr20:35173298..35173317,+	p5@MYL9
Hg19::chr20:35177518..35177532,+	p@chr20:35177518..35177532 +
Hg19::chr22:31501233..31501245,-	p@chr22:31501233..31501245 -
Hg19::chr2:175629374..175629385,-	p5@CHRNA1
Hg19::chr2:219269059..219269083,+	p@chr2:219269059..219269083 +
Hg19::chr3:52563245..52563281,-	p5@NT5DC2
Hg19::chr3:8590309..8590333,+	p@chr3:8590309..8590333 +
Hg19::chrX:153061882..153061933,+	p4@SSR4
Hg19::chrX:47442814..47442835,+	p6@TIMP1
Hg19::chrX:47444613..47444688,+	p2@TIMP1
Hg19::chrX:47444935..47445039,+	p@chrX:47444935..47445039 +
Hg19::chrX:47444981..47444990,-	p@chrX:47444981..47444990 -
Hg19::chrX:47445910..47445992,+	p@chrX:47445910..47445992 +

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:0005509	calcium ion binding	0.0138219499543876
GO:0051043	regulation of membrane protein ectodomain proteolysis	0.01680365693209
GO:0051045	negative regulation of membrane protein ectodomain proteolysis	0.01680365693209
GO:0048513	organ development	0.01680365693209
GO:0005789	endoplasmic reticulum membrane	0.01680365693209
GO:0042175	nuclear envelope-endoplasmic reticulum network	0.01680365693209
GO:0044432	endoplasmic reticulum part	0.0197111800970318
GO:0044446	intracellular organelle part	0.0207947129244736
GO:0044422	organelle part	0.0207947129244736
GO:0003012	muscle system process	0.0207947129244736
GO:0006936	muscle contraction	0.0207947129244736
GO:0048731	system development	0.0207947129244736
GO:0005784	translocon complex	0.0207947129244736
GO:0005796	Golgi lumen	0.0207947129244736
GO:0033559	unsaturated fatty acid metabolic process	0.0207947129244736
GO:0006636	unsaturated fatty acid biosynthetic process	0.0207947129244736
GO:0044444	cytoplasmic part	0.0218859500403191
GO:0043249	erythrocyte maturation	0.0218859500403191
GO:0045861	negative regulation of proteolysis	0.0218859500403191
GO:0031594	neuromuscular junction	0.0249463112312134
GO:0048821	erythrocyte development	0.0277140445166692
GO:0005783	endoplasmic reticulum	0.0310440415863154
GO:0048856	anatomical structure development	0.0311691245971762
GO:0007274	neuromuscular synaptic transmission	0.0311691245971762
GO:0007528	neuromuscular junction development	0.0332421739419477
GO:0030867	rough endoplasmic reticulum membrane	0.0348352846073642
GO:0012505	endomembrane system	0.0348352846073642
GO:0016717	oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water	0.0348352846073642
GO:0033619	membrane protein proteolysis	0.0348352846073642
GO:0005892	nicotinic acetylcholine-gated receptor-channel complex	0.0348352846073642
GO:0006509	membrane protein ectodomain proteolysis	0.0348352846073642
GO:0007224	smoothened signaling pathway	0.0354739566774395
GO:0032501	multicellular organismal process	0.0354739566774395
GO:0007275	multicellular organismal development	0.0354739566774395
GO:0001708	cell fate specification	0.0355904200985641
GO:0030162	regulation of proteolysis	0.0371404727022243
GO:0008191	metalloendopeptidase inhibitor activity	0.0371404727022243
GO:0005791	rough endoplasmic reticulum	0.0371404727022243
GO:0048468	cell development	0.0425221972773797
GO:0015464	acetylcholine receptor activity	0.0435597955985175
GO:0042166	acetylcholine binding	0.0445144965050405
GO:0004889	nicotinic acetylcholine-activated cation-selective channel activity	0.0454231554612994
GO:0005578	proteinaceous extracellular matrix	0.0467722061889542
GO:0005859	muscle myosin complex	0.047114905005606
GO:0016460	myosin II complex	0.0479035766969372

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	9.10e-30	180
contractile cell	7.04e-17	59
muscle precursor cell	1.71e-16	57
myoblast	1.71e-16	57
multi-potent skeletal muscle stem cell	1.71e-16	57
muscle cell	8.72e-16	54
fibroblast	4.96e-15	75
electrically responsive cell	6.09e-15	60
electrically active cell	6.09e-15	60
smooth muscle cell	5.61e-14	42
smooth muscle myoblast	5.61e-14	42
mesodermal cell	7.00e-13	119
somatic cell	2.78e-11	591
multi fate stem cell	3.59e-11	430
vascular associated smooth muscle cell	7.12e-11	32
somatic stem cell	2.24e-10	436
stem cell	9.63e-10	444
embryonic cell	3.85e-07	248
preadipocyte	4.46e-07	12
cardiocyte	6.17e-07	16

Uber Anatomy

Ontology term	p-value	n
dermomyotome	4.70e-18	70
somite	6.41e-18	83
paraxial mesoderm	6.41e-18	83
presomitic mesoderm	6.41e-18	83
presumptive segmental plate	6.41e-18	83
trunk paraxial mesoderm	6.41e-18	83
presumptive paraxial mesoderm	6.41e-18	83
trunk mesenchyme	2.11e-16	143
muscle tissue	2.91e-16	63
musculature	2.91e-16	63
musculature of body	2.91e-16	63
skeletal muscle tissue	3.82e-16	61
striated muscle tissue	3.82e-16	61
myotome	3.82e-16	61
multilaminar epithelium	1.70e-15	82
mesoderm	9.25e-15	448
mesoderm-derived structure	9.25e-15	448
presumptive mesoderm	9.25e-15	448
splanchnic layer of lateral plate mesoderm	2.02e-13	84
trunk	1.65e-12	216
artery	3.65e-11	42
arterial blood vessel	3.65e-11	42
arterial system	3.65e-11	42
epithelial tube	5.17e-11	118
vasculature	6.31e-11	79
vascular system	6.31e-11	79
musculoskeletal system	7.87e-11	167
blood vessel	3.87e-10	60
epithelial tube open at both ends	3.87e-10	60
blood vasculature	3.87e-10	60
vascular cord	3.87e-10	60
multi-cellular organism	6.00e-10	659
systemic artery	1.04e-09	33
systemic arterial system	1.04e-09	33
circulatory system	2.60e-09	113
vessel	3.18e-09	69
cardiovascular system	3.33e-09	110
unilaminar epithelium	3.81e-09	138
adipose tissue	1.10e-07	14
heart	2.00e-07	24
primitive heart tube	2.00e-07	24
primary heart field	2.00e-07	24
anterior lateral plate mesoderm	2.00e-07	24
heart tube	2.00e-07	24
heart primordium	2.00e-07	24
cardiac mesoderm	2.00e-07	24
cardiogenic plate	2.00e-07	24
heart rudiment	2.00e-07	24
mesenchyme	2.72e-07	238
entire embryonic mesenchyme	2.72e-07	238
primary circulatory organ	2.92e-07	27
lateral plate mesoderm	3.64e-07	216

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.