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Coexpression cluster:C2721

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Full id: C2721_Preadipocyte_Smooth_Mast_Fibroblast_Mesenchymal_mesenchymal_Myoblast



Phase1 CAGE Peaks

Hg19::chr3:139108446..139108457,-p3@COPB2
Hg19::chr3:139108463..139108474,-p2@COPB2
Hg19::chr3:139108475..139108518,-p1@COPB2
Hg19::chr6:83902933..83903005,-p1@PGM3


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

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

GO IDGO nameFDR corrected p-value
GO:0004610phosphoacetylglucosamine mutase activity0.00447427293064877
GO:0006890retrograde vesicle-mediated transport, Golgi to ER0.0126741212418515
GO:0030126COPI vesicle coat0.0126741212418515
GO:0030663COPI coated vesicle membrane0.0126741212418515
GO:0006891intra-Golgi vesicle-mediated transport0.0126741212418515
GO:0030137COPI-coated vesicle0.0126741212418515
GO:0016868intramolecular transferase activity, phosphotransferases0.0185286344708939
GO:0006041glucosamine metabolic process0.0195651482442882
GO:0006040amino sugar metabolic process0.0203707987891853
GO:0030120vesicle coat0.0207290900904621
GO:0030662coated vesicle membrane0.0207290900904621
GO:0016866intramolecular transferase activity0.0237242956795106
GO:0005798Golgi-associated vesicle0.0237242956795106
GO:0048193Golgi vesicle transport0.0272703770303969
GO:0030659cytoplasmic vesicle membrane0.0272703770303969
GO:0044433cytoplasmic vesicle part0.0272703770303969
GO:0012506vesicle membrane0.0272703770303969
GO:0030117membrane coat0.0272703770303969
GO:0048475coated membrane0.0272703770303969
GO:0030135coated vesicle0.0327374462988358
GO:0008565protein transporter activity0.0327374462988358
GO:0045045secretory pathway0.0486385500290966



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>

Uber Anatomy
Ontology termp-valuen
somite3.75e-1583
paraxial mesoderm3.75e-1583
presomitic mesoderm3.75e-1583
presumptive segmental plate3.75e-1583
trunk paraxial mesoderm3.75e-1583
presumptive paraxial mesoderm3.75e-1583
dermomyotome2.42e-1270
skeletal muscle tissue1.93e-1161
striated muscle tissue1.93e-1161
myotome1.93e-1161
multilaminar epithelium3.76e-1182
unilaminar epithelium4.97e-11138
artery7.20e-1142
arterial blood vessel7.20e-1142
arterial system7.20e-1142
muscle tissue7.53e-1163
musculature7.53e-1163
musculature of body7.53e-1163
trunk mesenchyme1.32e-09143
systemic artery1.70e-0933
systemic arterial system1.70e-0933
splanchnic layer of lateral plate mesoderm2.38e-0984
vasculature3.47e-0979
vascular system3.47e-0979
surface structure1.56e-0895
trunk5.99e-08216
blood vessel6.27e-0860
epithelial tube open at both ends6.27e-0860
blood vasculature6.27e-0860
vascular cord6.27e-0860
vessel7.55e-0869
integument9.40e-0845
integumental system9.40e-0845
cardiovascular system4.33e-07110
skin of body6.11e-0740
Disease
Ontology termp-valuen
ovarian cancer1.53e-0714
reproductive organ cancer6.12e-0729
female reproductive organ cancer7.96e-0727


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

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

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

This analysis result is provided for C0 - C305 clusters.

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