Coexpression cluster:C1102

Full id: C1102_acute_chronic_leukemia_Reticulocytes_dura_bone_Fibroblast

Phase1 CAGE Peaks

Hg19::chr10:103874747..103874767,-	p2@LDB1
Hg19::chr17:80708546..80708558,+	p@chr17:80708546..80708558 +
Hg19::chr1:65991026..65991079,+	p3@LEPR
Hg19::chr22:38539372..38539395,-	p4@PLA2G6
Hg19::chr22:50524113..50524135,-	p10@MLC1
Hg19::chr2:220379329..220379352,+	p3@ACCN4
Hg19::chr6:6710742..6710752,+	p@chr6:6710742..6710752 +

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:0045647	negative regulation of erythrocyte differentiation	0.0444300545866719
GO:0015081	sodium ion transmembrane transporter activity	0.0444300545866719
GO:0030274	LIM domain binding	0.0444300545866719
GO:0000299	integral to membrane of membrane fraction	0.0444300545866719
GO:0045646	regulation of erythrocyte differentiation	0.0488644285335995

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
endothelial cell of vascular tree	2.82e-07	24
endothelial cell	4.70e-07	35

Uber Anatomy

Ontology term	p-value	n
ectoderm-derived structure	1.60e-09	169
anatomical conduit	2.82e-09	241
ectoderm	2.92e-09	173
presumptive ectoderm	2.92e-09	173
anatomical cluster	4.12e-09	286
epithelium	1.14e-08	309
organism subdivision	1.84e-08	365
cell layer	1.89e-08	312
subdivision of head	3.71e-08	48
anterior region of body	5.18e-08	129
craniocervical region	5.18e-08	129
multi-tissue structure	1.72e-07	347
head	2.05e-07	123

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
GATA1#2623	5	9.68593438842889	4.03236593682386e-05	0.00073857640490345
ZNF263#10127	4	4.69819522114896	0.0056412295360981	0.0254806838301423

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.