Coexpression cluster:C2491

Full id: C2491_placenta_chorionic_mesothelioma_choriocarcinoma_amniotic_Alveolar_rectal

Phase1 CAGE Peaks

Hg19::chr19:4233239..4233253,+	p@chr19:4233239..4233253 +
Hg19::chr1:120049826..120049843,+	p1@HSD3B1
Hg19::chr1:165864821..165864850,+	p11@UCK2
Hg19::chr6:168720425..168720437,-	p6@DACT2

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:0004769	steroid delta-isomerase activity	0.00558016317052942
GO:0030868	smooth endoplasmic reticulum membrane	0.00558016317052942
GO:0004849	uridine kinase activity	0.00558016317052942
GO:0006702	androgen biosynthetic process	0.00558016317052942
GO:0006703	estrogen biosynthetic process	0.00558016317052942
GO:0008209	androgen metabolic process	0.00558016317052942
GO:0003854	3-beta-hydroxy-delta5-steroid dehydrogenase activity	0.00558016317052942
GO:0006700	C21-steroid hormone biosynthetic process	0.00558016317052942
GO:0005790	smooth endoplasmic reticulum	0.00558016317052942
GO:0008210	estrogen metabolic process	0.00558016317052942
GO:0019206	nucleoside kinase activity	0.00591818063176459
GO:0008207	C21-steroid hormone metabolic process	0.00658720775069912
GO:0016863	intramolecular oxidoreductase activity, transposing C=C bonds	0.00858334990095579
GO:0005758	mitochondrial intermembrane space	0.0092975337983597
GO:0031970	organelle envelope lumen	0.0092975337983597
GO:0016229	steroid dehydrogenase activity	0.0092975337983597
GO:0042446	hormone biosynthetic process	0.0117567410594796
GO:0016860	intramolecular oxidoreductase activity	0.0178105640810361
GO:0042445	hormone metabolic process	0.0201271552049052
GO:0006694	steroid biosynthetic process	0.0201271552049052
GO:0019205	nucleobase, nucleoside, nucleotide kinase activity	0.0201271552049052
GO:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.0313622677930984
GO:0005792	microsome	0.0313622677930984
GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	0.0313622677930984
GO:0042598	vesicular fraction	0.0313622677930984
GO:0008202	steroid metabolic process	0.0397599755868135

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

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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.