Coexpression cluster:C2986

Full id: C2986_Alveolar_large_breast_chronic_anaplastic_bronchial_skeletal

Phase1 CAGE Peaks

Hg19::chr10:127356632..127356638,-	p1@ALDOAP2
Hg19::chr16:30075463..30075519,+	p4@ALDOA
Hg19::chr16:30075523..30075542,+	p3@ALDOA

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:0004332	fructose-bisphosphate aldolase activity	1.50425087954398e-06
GO:0016832	aldehyde-lyase activity	2.44440767925897e-06
GO:0016830	carbon-carbon lyase activity	5.94716329876854e-05
GO:0006096	glycolysis	8.11892550611016e-05
GO:0006007	glucose catabolic process	8.11892550611016e-05
GO:0019320	hexose catabolic process	8.11892550611016e-05
GO:0046365	monosaccharide catabolic process	8.11892550611016e-05
GO:0046164	alcohol catabolic process	8.11892550611016e-05
GO:0044275	cellular carbohydrate catabolic process	8.9551766647138e-05
GO:0016052	carbohydrate catabolic process	8.9551766647138e-05
GO:0006006	glucose metabolic process	8.9551766647138e-05
GO:0019318	hexose metabolic process	0.000147750437793577
GO:0005996	monosaccharide metabolic process	0.000147750437793577
GO:0016829	lyase activity	0.000147750437793577
GO:0006066	alcohol metabolic process	0.000353821296167024
GO:0044262	cellular carbohydrate metabolic process	0.0004121916026179
GO:0044265	cellular macromolecule catabolic process	0.000431375541618472
GO:0009057	macromolecule catabolic process	0.000582001828394994
GO:0005975	carbohydrate metabolic process	0.000877934536547566
GO:0044248	cellular catabolic process	0.000877934536547566
GO:0009056	catabolic process	0.00120974004662755
GO:0006000	fructose metabolic process	0.00190737057953607
GO:0006941	striated muscle contraction	0.00293436601581802
GO:0006936	muscle contraction	0.0120161386848327
GO:0003012	muscle system process	0.0120161386848327

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
segment of respiratory tract	2.81e-07	47
respiratory primordium	5.10e-07	38
endoderm of foregut	5.10e-07	38
artery	9.17e-07	42
arterial blood vessel	9.17e-07	42
arterial system	9.17e-07	42

Disease

Ontology term	p-value	n
hematologic cancer	2.57e-19	51
immune system cancer	2.57e-19	51
leukemia	5.07e-16	39
myeloid leukemia	3.43e-12	31

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
SMC3#9126	2	10.0299552299552	0.012665637976747	0.0457015811447444
TRIM28#10155	2	12.3936833635083	0.00836834412943847	0.0328885938336127

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.