Coexpression cluster:C2177

Full id: C2177_Hepatocyte_testicular_smallcell_thyroid_Smooth_mesenchymal_Fibroblast

Phase1 CAGE Peaks

Hg19::chr12:104337515..104337541,+	p3@HSP90B1
Hg19::chr15:99797845..99797875,+	p1@HSP90B2P
Hg19::chr15:99798553..99798559,+	p2@HSP90B2P
Hg19::chr15:99799810..99799835,+	p@chr15:99799810..99799835 +

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
1.34994904617325e-07	8.54517746227668e-05	2	11	{HSP90B1,11} (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:0051082	unfolded protein binding	0.00358663320311547
GO:0006457	protein folding	0.00534750789630332
GO:0046790	virion binding	0.0102038813464514
GO:0050750	low-density lipoprotein receptor binding	0.0113687003422083
GO:0051208	sequestering of calcium ion	0.0113687003422083
GO:0005783	endoplasmic reticulum	0.0113687003422083
GO:0051238	sequestering of metal ion	0.0113687003422083
GO:0006950	response to stress	0.0168074092660392
GO:0051235	maintenance of localization	0.027875829922043
GO:0001666	response to hypoxia	0.0293685782503145
GO:0005788	endoplasmic reticulum lumen	0.0326240636776248
GO:0048471	perinuclear region of cytoplasm	0.0326240636776248
GO:0048770	pigment granule	0.0362549912429353
GO:0042470	melanosome	0.0362549912429353
GO:0055074	calcium ion homeostasis	0.0417632496534629
GO:0006874	cellular calcium ion homeostasis	0.0417632496534629
GO:0006875	cellular metal ion homeostasis	0.0417632496534629
GO:0055065	metal ion homeostasis	0.0417632496534629
GO:0005792	microsome	0.0485848139057113
GO:0042598	vesicular fraction	0.0485848139057113
GO:0006916	anti-apoptosis	0.0485848139057113
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0485848139057113
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0485848139057113
GO:0030003	cellular cation homeostasis	0.0495684243571312
GO:0055080	cation homeostasis	0.0495684243571312
GO:0043066	negative regulation of apoptosis	0.0498633436779434
GO:0043069	negative regulation of programmed cell death	0.0498633436779434
GO:0055082	cellular chemical homeostasis	0.0498633436779434
GO:0006873	cellular ion homeostasis	0.0498633436779434

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><br>uberon_data<br>disease_data<br>

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Uber Anatomy

Ontology term	p-value	n
reproductive structure	1.21e-07	59
reproductive system	1.21e-07	59

Disease

Ontology term	p-value	n
disease of cellular proliferation	5.75e-17	239
cancer	4.81e-16	235
cell type cancer	9.46e-11	143
carcinoma	3.14e-09	106
reproductive organ cancer	2.29e-08	29
ovarian cancer	4.07e-08	14
female reproductive organ cancer	6.63e-08	27

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)
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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

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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.