Coexpression cluster:C631

Full id: C631_b_plasma_xeroderma_lymphoma_splenic_Burkitt_B

Phase1 CAGE Peaks

Hg19::chr15:31521567..31521649,-	p1@ENST00000558109 p1@ENST00000559853 p1@ENST00000560812
Hg19::chr18:10890571..10890584,-	p1@PIEZO2
Hg19::chr18:4264542..4264555,+	p6@LOC284215
Hg19::chr3:178261188..178261195,-	p@chr3:178261188..178261195 -
Hg19::chr3:189838731..189838748,+	p1@LEPREL1-AS1
Hg19::chr3:98255434..98255449,-	p@chr3:98255434..98255449 -
Hg19::chr7:114556667..114556679,+	p@chr7:114556667..114556679 +
Hg19::chr7:119999940..119999943,+	p@chr7:119999940..119999943 +
Hg19::chr8:135577784..135577795,-	p15@ZFAT
Hg19::chr8:135577814..135577826,-	p12@ZFAT
Hg19::chr8:135577829..135577861,-	p6@ZFAT
Hg19::chr8:135577914..135577919,-	p23@ZFAT
Hg19::chrX:11682587..11682597,-	p25@ARHGAP6
Hg19::chrX:11778510..11778522,+	p19@MSL3

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:0005100	Rho GTPase activator activity	0.0137662388633777
GO:0005884	actin filament	0.0137662388633777
GO:0030041	actin filament polymerization	0.0137662388633777
GO:0005070	SH3/SH2 adaptor activity	0.0137662388633777
GO:0060090	molecular adaptor activity	0.0137662388633777
GO:0008154	actin polymerization and/or depolymerization	0.0137662388633777
GO:0030674	protein binding, bridging	0.0164179324149299
GO:0051258	protein polymerization	0.0164179324149299
GO:0005099	Ras GTPase activator activity	0.0248243651634679
GO:0007266	Rho protein signal transduction	0.0254562580949017
GO:0030036	actin cytoskeleton organization and biogenesis	0.0293378861022803
GO:0030029	actin filament-based process	0.0293378861022803
GO:0015629	actin cytoskeleton	0.0308308199512721
GO:0005096	GTPase activator activity	0.0336579704294293
GO:0007265	Ras protein signal transduction	0.0376746247774984
GO:0008047	enzyme activator activity	0.0376746247774984
GO:0005083	small GTPase regulator activity	0.0376746247774984
GO:0007010	cytoskeleton organization and biogenesis	0.0498862840605576
GO:0030695	GTPase regulator activity	0.0498862840605576

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><br>

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Cell Type

Ontology term	p-value	n
lymphocyte of B lineage	3.43e-17	24
pro-B cell	3.43e-17	24
lymphocyte	3.06e-10	53
common lymphoid progenitor	3.06e-10	53
B cell	5.01e-10	14
lymphoid lineage restricted progenitor cell	1.04e-09	52

Uber Anatomy

Ontology term	p-value	n
adult organism	1.88e-19	115
neural tube	1.80e-07	57
neural rod	1.80e-07	57
future spinal cord	1.80e-07	57
neural keel	1.80e-07	57
neural plate	2.95e-07	86
presumptive neural plate	2.95e-07	86
neurectoderm	3.99e-07	90
pre-chordal neural plate	6.34e-07	61

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
EBF1#1879	7	4.4532334232845	0.000375585717003615	0.00373188057255642

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.