Coexpression cluster:C4073

Full id: C4073_splenic_cord_adult_hairy_spleen_Multipotent_Burkitt

Phase1 CAGE Peaks

Hg19::chr21:27794750..27794757,+	p@chr21:27794750..27794757 +
Hg19::chr2:111562736..111562747,+	p3@ACOXL
Hg19::chr8:42623674..42623685,-	p3@CHRNA6

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:0003997	acyl-CoA oxidase activity	0.0191762526007121
GO:0005892	nicotinic acetylcholine-gated receptor-channel complex	0.0191762526007121
GO:0016634	oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor	0.0191762526007121
GO:0015464	acetylcholine receptor activity	0.0191762526007121
GO:0042166	acetylcholine binding	0.0191762526007121
GO:0004889	nicotinic acetylcholine-activated cation-selective channel activity	0.0191762526007121
GO:0003995	acyl-CoA dehydrogenase activity	0.02357974527894
GO:0043176	amine binding	0.0275052468288009
GO:0005231	excitatory extracellular ligand-gated ion channel activity	0.0389860458602887
GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	0.0389860458602887
GO:0042579	microbody	0.0389860458602887
GO:0005777	peroxisome	0.0389860458602887
GO:0043235	receptor complex	0.0389860458602887
GO:0050660	FAD binding	0.0389860458602887
GO:0005230	extracellular ligand-gated ion channel activity	0.0389860458602887
GO:0030594	neurotransmitter receptor activity	0.0389860458602887
GO:0042165	neurotransmitter binding	0.0389860458602887
GO:0045211	postsynaptic membrane	0.0389860458602887
GO:0044456	synapse part	0.0389860458602887
GO:0015276	ligand-gated ion channel activity	0.0389860458602887
GO:0022834	ligand-gated channel activity	0.0389860458602887
GO:0006631	fatty acid metabolic process	0.0433233753343024

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
lymphoid lineage restricted progenitor cell	1.37e-14	52
lymphocyte	3.10e-14	53
common lymphoid progenitor	3.10e-14	53
lymphocyte of B lineage	1.20e-07	24
pro-B cell	1.20e-07	24

Uber Anatomy

Ontology term	p-value	n
hemopoietic organ	1.18e-11	7
spleen	5.41e-11	3
gastrointestinal system mesentery	5.41e-11	3
stomach region	5.41e-11	3
mesentery	5.41e-11	3
gastrointestinal system serosa	5.41e-11	3
mesentery of stomach	5.41e-11	3
gut mesentery	5.41e-11	3
dorsal mesentery	5.41e-11	3
dorsal mesogastrium	5.41e-11	3
peritoneal cavity	5.41e-11	3
spleen primordium	5.41e-11	3
neocortex	1.25e-08	20
neural tube	7.01e-08	57
neural rod	7.01e-08	57
future spinal cord	7.01e-08	57
neural keel	7.01e-08	57
regional part of cerebral cortex	9.12e-08	22
regional part of brain	1.61e-07	59
telencephalon	2.86e-07	34
meninx	3.75e-07	2
membrane organ	3.75e-07	2
future meninx	3.75e-07	2
regional part of forebrain	4.86e-07	41
forebrain	4.86e-07	41
future forebrain	4.86e-07	41
anterior neural tube	7.93e-07	42
neural plate	9.20e-07	86
presumptive neural plate	9.20e-07	86

Disease

Ontology term	p-value	n
lymphoma	2.52e-16	10

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.