Coexpression cluster:C423

Full id: C423_Preadipocyte_Adipocyte_Chondrocyte_tenocyte_Osteoblast_Synoviocyte_Fibroblast

Phase1 CAGE Peaks

Hg19::chr11:114162377..114162406,+	p@chr11:114162377..114162406 +
Hg19::chr11:66811898..66811900,-	p@chr11:66811898..66811900 -
Hg19::chr11:86206996..86207000,+	p@chr11:86206996..86207000 +
Hg19::chr12:130751497..130751499,+	p@chr12:130751497..130751499 +
Hg19::chr15:68655558..68655569,-	p@chr15:68655558..68655569 -
Hg19::chr15:68805087..68805101,+	p@chr15:68805087..68805101 +
Hg19::chr16:28874345..28874371,+	p8@SH2B1
Hg19::chr17:79402524..79402529,-	p@chr17:79402524..79402529 -
Hg19::chr19:18893611..18893635,-	p1@AK094919
Hg19::chr19:18901074..18901086,+	p@chr19:18901074..18901086 +
Hg19::chr19:18902106..18902122,-	p1@COMP
Hg19::chr1:103471622..103471650,+	p@chr1:103471622..103471650 +
Hg19::chr1:240577171..240577181,-	p@chr1:240577171..240577181 -
Hg19::chr1:3603926..3603929,+	p@chr1:3603926..3603929 +
Hg19::chr22:44140357..44140361,+	p@chr22:44140357..44140361 +
Hg19::chr2:30523559..30523563,-	p@chr2:30523559..30523563 -
Hg19::chr4:815301..815303,-	p@chr4:815301..815303 -
Hg19::chr5:125759509..125759522,+	p@chr5:125759509..125759522 +
Hg19::chr5:35771474..35771476,+	p@chr5:35771474..35771476 +
Hg19::chr6:75474615..75474618,+	p@chr6:75474615..75474618 +
Hg19::chr6:75794245..75794256,-	p12@AL359627
Hg19::chr6:75794482..75794491,-	p19@AL359627
Hg19::chr6:75808553..75808557,-	p@chr6:75808553..75808557 -
Hg19::chr7:150870947..150870948,+	p@chr7:150870947..150870948 +

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:0005201	extracellular matrix structural constituent	0.00494503066961316
GO:0005595	collagen type XII	0.00494503066961316
GO:0001501	skeletal development	0.00494503066961316
GO:0030020	extracellular matrix structural constituent conferring tensile strength	0.00494503066961316
GO:0008140	cAMP response element binding protein binding	0.00593377478302222
GO:0005593	FACIT collagen	0.00988831463864661
GO:0005578	proteinaceous extracellular matrix	0.0108509110773683
GO:0030934	anchoring collagen	0.0109850757914487
GO:0030199	collagen fibril organization	0.0109850757914487
GO:0044421	extracellular region part	0.0318840616604973
GO:0022610	biological adhesion	0.0318840616604973
GO:0007155	cell adhesion	0.0318840616604973
GO:0005515	protein binding	0.0318840616604973
GO:0030198	extracellular matrix organization and biogenesis	0.0324328346247576
GO:0005581	collagen	0.0339362505987833
GO:0048513	organ development	0.0339362505987833
GO:0043062	extracellular structure organization and biogenesis	0.0486918785817363

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	1.27e-12	180
fibroblast	7.50e-11	75
preadipocyte	3.03e-07	12

Uber Anatomy

Ontology term	p-value	n
adult organism	7.27e-07	115

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.