Coexpression cluster:C609

Full id: C609_Smooth_mesenchymal_Preadipocyte_Cardiac_Fibroblast_Osteoblast_tenocyte

Phase1 CAGE Peaks

Hg19::chrX:47441825..47441846,+	p1@TIMP1
Hg19::chrX:47442857..47442871,+	p5@TIMP1
Hg19::chrX:47442876..47442906,+	p3@TIMP1
Hg19::chrX:47444329..47444370,+	p4@TIMP1
Hg19::chrX:47444375..47444387,-	p@chrX:47444375..47444387 -
Hg19::chrX:47444394..47444423,-	p@chrX:47444394..47444423 -
Hg19::chrX:47444675..47444713,-	p@chrX:47444675..47444713 -
Hg19::chrX:47444716..47444731,-	p@chrX:47444716..47444731 -
Hg19::chrX:47445998..47446031,+	p@chrX:47445998..47446031 +
Hg19::chrX:47446039..47446094,+	p@chrX:47446039..47446094 +
Hg19::chrX:47446043..47446074,-	p4@CU674427
Hg19::chrX:47446081..47446133,-	p1@CU674427
Hg19::chrX:47446099..47446146,+	p@chrX:47446099..47446146 +
Hg19::chrX:47446141..47446157,-	p7@CU674427
Hg19::chrX:47446158..47446174,-	p3@CU674427

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:0051045	negative regulation of membrane protein ectodomain proteolysis	0.000809490168373955
GO:0051043	regulation of membrane protein ectodomain proteolysis	0.000809490168373955
GO:0043249	erythrocyte maturation	0.00202372542093489
GO:0045861	negative regulation of proteolysis	0.00202372542093489
GO:0048821	erythrocyte development	0.00226657247144707
GO:0033619	membrane protein proteolysis	0.00300667776824612
GO:0006509	membrane protein ectodomain proteolysis	0.00300667776824612
GO:0030162	regulation of proteolysis	0.00305807396941272
GO:0008191	metalloendopeptidase inhibitor activity	0.00305807396941272
GO:0030218	erythrocyte differentiation	0.0053426351112681
GO:0048469	cell maturation	0.00662310137760508
GO:0021700	developmental maturation	0.00715049648730327
GO:0030099	myeloid cell differentiation	0.00958934507150685
GO:0051248	negative regulation of protein metabolic process	0.0120267110729845
GO:0030097	hemopoiesis	0.0173326130169482
GO:0048534	hemopoietic or lymphoid organ development	0.0173326130169482
GO:0002520	immune system development	0.0173326130169482
GO:0008284	positive regulation of cell proliferation	0.0209568010256813
GO:0004866	endopeptidase inhibitor activity	0.0214727918347617
GO:0030414	protease inhibitor activity	0.0215324384787472
GO:0031324	negative regulation of cellular metabolic process	0.0282350170728835
GO:0004857	enzyme inhibitor activity	0.0282350170728835
GO:0005578	proteinaceous extracellular matrix	0.0282350170728835
GO:0051246	regulation of protein metabolic process	0.0282350170728835
GO:0009892	negative regulation of metabolic process	0.0282350170728835
GO:0042127	regulation of cell proliferation	0.0292039145359527
GO:0008283	cell proliferation	0.0446718648473034

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
multi fate stem cell	1.24e-22	427
somatic stem cell	2.39e-21	433
stem cell	1.54e-19	441
somatic cell	7.03e-19	588
fibroblast	1.15e-18	76
muscle precursor cell	3.67e-18	58
myoblast	3.67e-18	58
multi-potent skeletal muscle stem cell	3.67e-18	58
contractile cell	4.46e-17	59
muscle cell	5.54e-17	55
smooth muscle cell	4.89e-14	43
smooth muscle myoblast	4.89e-14	43
electrically responsive cell	6.33e-14	61
electrically active cell	6.33e-14	61
non-terminally differentiated cell	4.03e-13	106
animal cell	5.73e-13	679
eukaryotic cell	5.73e-13	679
vascular associated smooth muscle cell	2.08e-11	32
connective tissue cell	4.59e-11	361
mesodermal cell	2.05e-10	121
mesenchymal cell	8.59e-10	354
cardiocyte	3.31e-08	16
classical monocyte	7.24e-08	42
CD14-positive, CD16-negative classical monocyte	7.24e-08	42
preadipocyte	8.30e-08	12
motile cell	1.10e-07	386
defensive cell	1.77e-07	48
phagocyte	1.77e-07	48

Uber Anatomy

Ontology term	p-value	n
mesoderm	9.54e-24	315
mesoderm-derived structure	9.54e-24	315
presumptive mesoderm	9.54e-24	315
musculoskeletal system	1.05e-19	167
somite	1.37e-17	71
presomitic mesoderm	1.37e-17	71
presumptive segmental plate	1.37e-17	71
dermomyotome	1.37e-17	71
trunk paraxial mesoderm	1.37e-17	71
epithelial vesicle	1.66e-17	78
dense mesenchyme tissue	2.09e-17	73
paraxial mesoderm	7.00e-17	72
presumptive paraxial mesoderm	7.00e-17	72
skeletal muscle tissue	2.70e-16	62
striated muscle tissue	2.70e-16	62
myotome	2.70e-16	62
muscle tissue	1.25e-15	64
musculature	1.25e-15	64
musculature of body	1.25e-15	64
multilaminar epithelium	6.70e-14	83
trunk mesenchyme	2.00e-13	122
mesenchyme	2.55e-12	160
entire embryonic mesenchyme	2.55e-12	160
splanchnic layer of lateral plate mesoderm	1.49e-11	83
lateral plate mesoderm	1.72e-11	203
connective tissue	4.62e-11	371
artery	7.59e-10	42
arterial blood vessel	7.59e-10	42
arterial system	7.59e-10	42
epithelial tube	2.48e-09	117
unilaminar epithelium	2.55e-09	148
circulatory system	3.03e-09	112
cardiovascular system	3.27e-09	109
trunk	3.86e-09	199
vasculature	6.34e-09	78
vascular system	6.34e-09	78
multi-cellular organism	9.65e-09	656
systemic artery	1.06e-08	33
systemic arterial system	1.06e-08	33
heart	1.19e-08	24
primitive heart tube	1.19e-08	24
primary heart field	1.19e-08	24
anterior lateral plate mesoderm	1.19e-08	24
heart tube	1.19e-08	24
heart primordium	1.19e-08	24
cardiac mesoderm	1.19e-08	24
cardiogenic plate	1.19e-08	24
heart rudiment	1.19e-08	24
primary circulatory organ	2.86e-08	27
epithelial tube open at both ends	9.78e-08	59
blood vessel	9.78e-08	59
blood vasculature	9.78e-08	59
vascular cord	9.78e-08	59
anatomical group	1.97e-07	625
vessel	2.50e-07	68
anatomical system	2.53e-07	624
adipose tissue	4.16e-07	14
organism subdivision	5.51e-07	264

Disease

Ontology term	p-value	n
ovarian cancer	6.47e-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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(#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	4.38498220640569	0.000138779721682423	0.00181197841640088

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.