Coexpression cluster:C198

Full id: C198_Mesenchymal_Hair_Hepatic_Fibroblast_Smooth_tenocyte_Pericytes

Phase1 CAGE Peaks

Hg19::chr15:74468156..74468168,+	p@chr15:74468156..74468168 +
Hg19::chr21:47401650..47401692,+	p1@COL6A1
Hg19::chr21:47402595..47402613,+	p@chr21:47402595..47402613 +
Hg19::chr21:47404171..47404205,+	p@chr21:47404171..47404205 +
Hg19::chr21:47404201..47404227,-	p@chr21:47404201..47404227 -
Hg19::chr21:47404207..47404295,+	p@chr21:47404207..47404295 +
Hg19::chr21:47404302..47404340,+	p@chr21:47404302..47404340 +
Hg19::chr21:47404327..47404375,-	p@chr21:47404327..47404375 -
Hg19::chr21:47406434..47406447,+	p@chr21:47406434..47406447 +
Hg19::chr21:47406480..47406493,-	p@chr21:47406480..47406493 -
Hg19::chr21:47406517..47406541,+	p6@COL6A1
Hg19::chr21:47406543..47406568,+	p5@COL6A1
Hg19::chr21:47406856..47406869,+	p15@COL6A1
Hg19::chr21:47406885..47406955,+	p2@COL6A1
Hg19::chr21:47406935..47406993,-	p@chr21:47406935..47406993 -
Hg19::chr21:47407540..47407554,-	p@chr21:47407540..47407554 -
Hg19::chr21:47408990..47409018,+	p@chr21:47408990..47409018 +
Hg19::chr21:47409532..47409537,+	p@chr21:47409532..47409537 +
Hg19::chr21:47409561..47409573,-	p@chr21:47409561..47409573 -
Hg19::chr21:47409685..47409693,-	p@chr21:47409685..47409693 -
Hg19::chr21:47410165..47410170,+	p@chr21:47410165..47410170 +
Hg19::chr21:47410279..47410304,+	p@chr21:47410279..47410304 +
Hg19::chr21:47410688..47410701,+	p@chr21:47410688..47410701 +
Hg19::chr21:47410932..47410962,-	p@chr21:47410932..47410962 -
Hg19::chr21:47412107..47412140,-	p@chr21:47412107..47412140 -
Hg19::chr21:47418034..47418040,+	p@chr21:47418034..47418040 +
Hg19::chr21:47418307..47418324,+	p@chr21:47418307..47418324 +
Hg19::chr21:47418813..47418822,+	p3@COL6A1
Hg19::chr21:47421885..47421916,+	p9@COL6A1
Hg19::chr21:47421929..47421942,+	p19@COL6A1
Hg19::chr21:47422170..47422205,+	p4@COL6A1
Hg19::chr21:47422241..47422263,+	p7@COL6A1
Hg19::chr21:47422530..47422542,+	p13@COL6A1
Hg19::chr21:47423457..47423466,+	p@chr21:47423457..47423466 +
Hg19::chr21:47423500..47423511,+	p@chr21:47423500..47423511 +
Hg19::chr21:47423769..47423786,+	p@chr21:47423769..47423786 +
Hg19::chr21:47423911..47423979,+	p@chr21:47423911..47423979 +
Hg19::chr21:47423986..47424046,-	p@chr21:47423986..47424046 -
Hg19::chr21:47424225..47424238,+	p@chr21:47424225..47424238 +
Hg19::chr21:47424253..47424260,+	p@chr21:47424253..47424260 +
Hg19::chr21:47424266..47424304,+	p@chr21:47424266..47424304 +
Hg19::chr21:47424373..47424395,+	p@chr21:47424373..47424395 +
Hg19::chr21:47424418..47424444,+	p@chr21:47424418..47424444 +
Hg19::chr21:47424561..47424570,+	p@chr21:47424561..47424570 +
Hg19::chr21:47424604..47424616,+	p@chr21:47424604..47424616 +
Hg19::chr21:47424675..47424687,+	p@chr21:47424675..47424687 +
Hg19::chr21:47518016..47518071,+	p1@COL6A2
Hg19::chr21:47518637..47518688,+	p2@COL6A2
Hg19::chr21:47518695..47518709,+	p6@COL6A2
Hg19::chr21:47531348..47531389,+	p10@COL6A2
Hg19::chr21:47531422..47531446,+	p14@COL6A2
Hg19::chr21:47531453..47531471,+	p13@COL6A2
Hg19::chr21:47531482..47531512,-	p@chr21:47531482..47531512 -
Hg19::chr21:47531911..47531959,-	p@chr21:47531911..47531959 -
Hg19::chr21:47531929..47531974,+	p12@COL6A2
Hg19::chr21:47532028..47532078,+	p4@COL6A2
Hg19::chr21:47532083..47532106,+	p11@COL6A2
Hg19::chr21:47532107..47532192,+	p5@COL6A2
Hg19::chr21:47532226..47532238,+	p28@COL6A2
Hg19::chr21:47532285..47532298,+	p18@COL6A2
Hg19::chr21:47532318..47532355,+	p8@COL6A2
Hg19::chr21:47532365..47532492,-	p@chr21:47532365..47532492 -
Hg19::chr21:47532366..47532425,+	p3@COL6A2
Hg19::chr21:47535780..47535815,+	p17@COL6A2
Hg19::chr21:47535916..47535938,+	p21@COL6A2
Hg19::chr21:47536285..47536294,+	p@chr21:47536285..47536294 +
Hg19::chr21:47539710..47539714,+	p@chr21:47539710..47539714 +
Hg19::chr21:47540424..47540442,+	p27@COL6A2
Hg19::chr21:47542827..47542859,-	p@chr21:47542827..47542859 -
Hg19::chr21:47545494..47545526,-	p@chr21:47545494..47545526 -
Hg19::chr21:47545703..47545747,+	p15@COL6A2
Hg19::chr21:47545788..47545804,+	p42@COL6A2
Hg19::chr21:47545812..47545838,+	p22@COL6A2
Hg19::chr21:47545905..47545936,+	p23@COL6A2
Hg19::chr21:47545938..47545951,+	p19@COL6A2
Hg19::chr21:47545961..47545972,+	p37@COL6A2
Hg19::chr21:47546004..47546019,+	p26@COL6A2
Hg19::chr21:47546031..47546052,+	p29@COL6A2
Hg19::chr21:47546401..47546428,+	p40@COL6A2
Hg19::chr21:47549257..47549279,+	p44@COL6A2
Hg19::chr21:47551929..47551951,+	p24@COL6A2
Hg19::chr21:47551979..47551997,+	p20@COL6A2
Hg19::chr21:47552005..47552020,+	p7@COL6A2
Hg19::chr21:47552113..47552127,+	p36@COL6A2

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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p.value	FDR	nGenes	nPathway	Name
4.88436109433595e-05	0.00772950143178664	2	200	Focal adhesion (KEGG):04510
8.76239653607e-06	0.00184886566911077	2	85	ECM-receptor interaction (KEGG):04512
7.95242710836606e-06	0.00184886566911077	2	81	Protein digestion and absorption (KEGG):04974
5.10526184734612e-06	0.00184886566911077	2	65	Signaling by PDGF (Reactome):REACT_16888
8.58567593366187e-05	0.0107016695200294	2	265	Axon guidance (Reactome):REACT_18266
0.000101437625782269	0.0107016695200294	2	288	{ACTB,297} (Static Module):NA

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:0006817	phosphate transport	0.000475071195691557
GO:0015698	inorganic anion transport	0.000787730087606359
GO:0006820	anion transport	0.000794760467509113
GO:0005589	collagen type VI	0.000794760467509113
GO:0005578	proteinaceous extracellular matrix	0.000827362245860152
GO:0030934	anchoring collagen	0.00238403574865387
GO:0044421	extracellular region part	0.00239321462513256
GO:0022610	biological adhesion	0.00239321462513256
GO:0007155	cell adhesion	0.00239321462513256
GO:0006811	ion transport	0.00434955216285057
GO:0030198	extracellular matrix organization and biogenesis	0.00664278275475231
GO:0005581	collagen	0.0071473696355446
GO:0043062	extracellular structure organization and biogenesis	0.0102583545846563
GO:0030674	protein binding, bridging	0.0103183517189704
GO:0005201	extracellular matrix structural constituent	0.012989492507796
GO:0044420	extracellular matrix part	0.012989492507796
GO:0006810	transport	0.0222181450900092
GO:0051234	establishment of localization	0.0222181450900092
GO:0051179	localization	0.0247191580527521
GO:0016337	cell-cell adhesion	0.0274381479679809

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	1.08e-47	180
fibroblast	8.20e-25	75
muscle precursor cell	8.14e-19	57
myoblast	8.14e-19	57
multi-potent skeletal muscle stem cell	8.14e-19	57
contractile cell	1.67e-18	59
muscle cell	3.92e-18	54
electrically responsive cell	7.73e-18	60
electrically active cell	7.73e-18	60
smooth muscle cell	6.20e-14	42
smooth muscle myoblast	6.20e-14	42
vascular associated smooth muscle cell	1.26e-10	32
skin fibroblast	8.42e-10	23
mesodermal cell	9.57e-10	119
stromal cell	9.07e-08	27

Uber Anatomy

Ontology term	p-value	n
somite	6.46e-25	83
paraxial mesoderm	6.46e-25	83
presomitic mesoderm	6.46e-25	83
presumptive segmental plate	6.46e-25	83
trunk paraxial mesoderm	6.46e-25	83
presumptive paraxial mesoderm	6.46e-25	83
dermomyotome	3.00e-23	70
trunk mesenchyme	9.28e-22	143
multilaminar epithelium	8.67e-20	82
muscle tissue	1.84e-19	63
musculature	1.84e-19	63
musculature of body	1.84e-19	63
skeletal muscle tissue	3.11e-19	61
striated muscle tissue	3.11e-19	61
myotome	3.11e-19	61
organism subdivision	7.68e-19	365
multi-tissue structure	4.66e-15	347
trunk	6.48e-15	216
surface structure	3.73e-12	95
mesenchyme	1.25e-11	238
entire embryonic mesenchyme	1.25e-11	238
multi-cellular organism	2.61e-11	659
integument	4.10e-10	45
integumental system	4.10e-10	45
cell layer	1.06e-08	312
adipose tissue	1.29e-08	14
splanchnic layer of lateral plate mesoderm	1.31e-08	84
epithelium	2.40e-08	309
unilaminar epithelium	4.64e-08	138
skin of body	9.46e-08	40
anatomical system	2.73e-07	625
anatomical group	2.98e-07	626
epithelial tube	3.09e-07	118
systemic artery	3.41e-07	33
systemic arterial system	3.41e-07	33
artery	4.27e-07	42
arterial blood vessel	4.27e-07	42
arterial system	4.27e-07	42

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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