Coexpression cluster:C3790

Full id: C3790_Neutrophils_Eosinophils_Mesenchymal_Whole_Alveolar_blood_CD14

Phase1 CAGE Peaks

Hg19::chr19:41082755..41082801,+	p1@SHKBP1
Hg19::chr7:100450328..100450398,+	p1@SLC12A9
Hg19::chr7:128050027..128050053,-	p2@IMPDH1

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:0003938	IMP dehydrogenase activity	0.0128031549908582
GO:0046037	GMP metabolic process	0.0128031549908582
GO:0006177	GMP biosynthetic process	0.0128031549908582
GO:0009168	purine ribonucleoside monophosphate biosynthetic process	0.0224329571967736
GO:0009167	purine ribonucleoside monophosphate metabolic process	0.0224329571967736
GO:0009127	purine nucleoside monophosphate biosynthetic process	0.0224329571967736
GO:0009126	purine nucleoside monophosphate metabolic process	0.0224329571967736
GO:0009161	ribonucleoside monophosphate metabolic process	0.0224329571967736
GO:0009156	ribonucleoside monophosphate biosynthetic process	0.0224329571967736
GO:0006183	GTP biosynthetic process	0.0224329571967736
GO:0046039	GTP metabolic process	0.0224329571967736
GO:0009124	nucleoside monophosphate biosynthetic process	0.0224329571967736
GO:0009123	nucleoside monophosphate metabolic process	0.0224329571967736
GO:0009206	purine ribonucleoside triphosphate biosynthetic process	0.0403744453611115
GO:0009145	purine nucleoside triphosphate biosynthetic process	0.0403744453611115
GO:0009201	ribonucleoside triphosphate biosynthetic process	0.0403744453611115
GO:0008076	voltage-gated potassium channel complex	0.0403744453611115
GO:0009142	nucleoside triphosphate biosynthetic process	0.0403744453611115
GO:0009205	purine ribonucleoside triphosphate metabolic process	0.0403744453611115
GO:0009144	purine nucleoside triphosphate metabolic process	0.0403744453611115
GO:0009199	ribonucleoside triphosphate metabolic process	0.0403744453611115
GO:0030955	potassium ion binding	0.0403744453611115
GO:0009152	purine ribonucleotide biosynthetic process	0.0403744453611115
GO:0009141	nucleoside triphosphate metabolic process	0.0403744453611115
GO:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.0403744453611115
GO:0009150	purine ribonucleotide metabolic process	0.0403744453611115
GO:0009260	ribonucleotide biosynthetic process	0.0403744453611115
GO:0006164	purine nucleotide biosynthetic process	0.0403744453611115
GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	0.0403744453611115
GO:0005249	voltage-gated potassium channel activity	0.0403744453611115
GO:0006163	purine nucleotide metabolic process	0.0403744453611115
GO:0009259	ribonucleotide metabolic process	0.0403744453611115
GO:0005267	potassium channel activity	0.0472803330340079
GO:0031420	alkali metal ion binding	0.0472803330340079
GO:0007601	visual perception	0.0472803330340079
GO:0050953	sensory perception of light stimulus	0.0472803330340079

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)
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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.