Coexpression cluster:C1702

Full id: C1702_Urothelial_Bronchial_Corneal_Sebocyte_Tracheal_Esophageal_Gingival

Phase1 CAGE Peaks

Hg19::chr13:20762566..20762577,-	p@chr13:20762566..20762577 -
Hg19::chr13:20763282..20763295,-	p6@GJB2
Hg19::chr13:20767067..20767083,-	p1@GJB2
Hg19::chr13:20934450..20934456,+	p@chr13:20934450..20934456 +
Hg19::chr5:156887031..156887059,+	p3@NIPAL4

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:0005243	gap junction channel activity	0.00298039561992229
GO:0022829	wide pore channel activity	0.00298039561992229
GO:0016328	lateral plasma membrane	0.00298039561992229
GO:0030539	male genitalia development	0.00298039561992229
GO:0048806	genitalia development	0.00317908866125044
GO:0046546	development of primary male sexual characteristics	0.00500412104085718
GO:0005922	connexon complex	0.00500412104085718
GO:0046661	male sex differentiation	0.00500412104085718
GO:0005921	gap junction	0.00500412104085718
GO:0014704	intercalated disc	0.00622571529494878
GO:0045137	development of primary sexual characteristics	0.00722520150284191
GO:0007548	sex differentiation	0.00886476645925604
GO:0003006	reproductive developmental process	0.00886476645925604
GO:0007605	sensory perception of sound	0.0116566584245849
GO:0050954	sensory perception of mechanical stimulus	0.0116566584245849
GO:0005911	intercellular junction	0.014322456729071
GO:0022414	reproductive process	0.0237652461196418
GO:0030054	cell junction	0.0315701165665842
GO:0007267	cell-cell signaling	0.0440278548720795
GO:0015267	channel activity	0.0440278548720795
GO:0022803	passive transmembrane transporter activity	0.0440278548720795

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
endo-epithelial cell	2.67e-19	42
respiratory epithelial cell	2.18e-16	13
transitional epithelial cell	6.56e-13	4
urothelial cell	6.56e-13	4
endodermal cell	1.40e-12	58
general ecto-epithelial cell	4.48e-12	14
classical monocyte	7.19e-11	42
CD14-positive, CD16-negative classical monocyte	7.19e-11	42
bronchial epithelial cell	1.12e-09	3
defensive cell	4.54e-09	48
phagocyte	4.54e-09	48
epithelial cell of Malassez	5.34e-09	3
epithelial cell of prostate	6.46e-09	3
epithelial cell of tracheobronchial tree	6.36e-08	9
epithelial cell of lower respiratory tract	6.36e-08	9
epithelial cell	2.45e-07	253
corneal epithelial cell	3.42e-07	2

Uber Anatomy

Ontology term	p-value	n
urothelium	2.63e-10	5
lower respiratory tract epithelium	1.12e-09	3
epithelium of bronchus	1.12e-09	3
endoderm-derived structure	2.92e-09	160
endoderm	2.92e-09	160
presumptive endoderm	2.92e-09	160
embryonic structure	1.06e-08	564
transitional epithelium	1.44e-08	6
developing anatomical structure	5.62e-08	581
respiratory tract	6.07e-08	54
respiratory system	1.04e-07	74
embryo	1.57e-07	592
jaw skeleton	7.81e-07	4
splanchnocranium	7.81e-07	4

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.