Coexpression cluster:C1770

Full id: C1770_normal_sacrococcigeal_tridermal_Prostate_Smooth_rectum_smooth

Phase1 CAGE Peaks

Hg19::chr16:86256667..86256687,-	p@chr16:86256667..86256687 -
Hg19::chr16:86542381..86542392,-	p1@ENST00000499071
Hg19::chr16:86542455..86542500,-	p1@LOC400550
Hg19::chr16:86544113..86544145,+	p1@FOXF1
Hg19::chr16:86547162..86547166,+	p@chr16:86547162..86547166 +

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:0030859	polarized epithelial cell differentiation	0.00135405628164371
GO:0045198	establishment of epithelial cell polarity	0.00135405628164371
GO:0035089	establishment of apical/basal cell polarity	0.00270811256328741
GO:0030010	establishment of cell polarity	0.00270811256328741
GO:0001738	morphogenesis of a polarized epithelium	0.00270811256328741
GO:0045197	establishment and/or maintenance of epithelial cell polarity	0.00270811256328741
GO:0048566	embryonic gut development	0.00270811256328741
GO:0035088	establishment and/or maintenance of apical/basal cell polarity	0.00304662663369834
GO:0048565	gut development	0.00330991535512906
GO:0001570	vasculogenesis	0.00487460261391734
GO:0048568	embryonic organ development	0.00492384102415893
GO:0007163	establishment and/or maintenance of cell polarity	0.00654460536127792
GO:0030855	epithelial cell differentiation	0.00749938863679591
GO:0030324	lung development	0.00776325601475725
GO:0030323	respiratory tube development	0.00776325601475725
GO:0030198	extracellular matrix organization and biogenesis	0.00778582361945131
GO:0002009	morphogenesis of an epithelium	0.0100359465580651
GO:0043062	extracellular structure organization and biogenesis	0.0126378586286746
GO:0035295	tube development	0.0166762721002435
GO:0048514	blood vessel morphogenesis	0.0199046273401625
GO:0001568	blood vessel development	0.0204339402502596
GO:0001944	vasculature development	0.0204339402502596
GO:0003713	transcription coactivator activity	0.0220181325797716
GO:0005667	transcription factor complex	0.0236959849287649
GO:0045893	positive regulation of transcription, DNA-dependent	0.0241563640645237
GO:0009790	embryonic development	0.0244771712450978
GO:0045941	positive regulation of transcription	0.0278935594018604
GO:0045935	positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0278935594018604
GO:0003712	transcription cofactor activity	0.0278935594018604
GO:0016563	transcription activator activity	0.0278935594018604
GO:0009887	organ morphogenesis	0.030889408924997
GO:0031325	positive regulation of cellular metabolic process	0.030889408924997
GO:0009893	positive regulation of metabolic process	0.0320870306741024
GO:0006357	regulation of transcription from RNA polymerase II promoter	0.0334258464954332
GO:0008134	transcription factor binding	0.0334258464954332
GO:0044451	nucleoplasm part	0.0340018577390531
GO:0000902	cell morphogenesis	0.0340652054013522
GO:0032989	cellular structure morphogenesis	0.0340652054013522
GO:0005654	nucleoplasm	0.0360387287268248
GO:0006366	transcription from RNA polymerase II promoter	0.0433298010125986
GO:0031981	nuclear lumen	0.0455755528943491

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.