Coexpression cluster:C2335

Full id: C2335_lung_immature_thyroid_salivary_esophagus_ductus_tongue

Phase1 CAGE Peaks

Hg19::chr15:45422041..45422052,-	p2@DUOXA1
Hg19::chr15:45422056..45422086,-	p1@DUOXA1
Hg19::chr15:45422163..45422172,+	p2@DUOX1
Hg19::chr15:45422178..45422201,+	p1@DUOX1

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:0050665	hydrogen peroxide biosynthetic process	0.0038853240511488
GO:0042335	cuticle development	0.0038853240511488
GO:0016174	NAD(P)H oxidase activity	0.0038853240511488
GO:0042554	superoxide release	0.0038853240511488
GO:0050664	oxidoreductase activity, acting on NADH or NADPH, with oxygen as acceptor	0.0038853240511488
GO:0051591	response to cAMP	0.00631290812271665
GO:0042744	hydrogen peroxide catabolic process	0.00631290812271665
GO:0042743	hydrogen peroxide metabolic process	0.00631290812271665
GO:0042542	response to hydrogen peroxide	0.00815725894822441
GO:0006801	superoxide metabolic process	0.00815725894822441
GO:0000302	response to reactive oxygen species	0.00953361626905974
GO:0050661	NADP binding	0.0116491094420604
GO:0042446	hormone biosynthetic process	0.0116491094420604
GO:0019221	cytokine and chemokine mediated signaling pathway	0.0116491094420604
GO:0006800	oxygen and reactive oxygen species metabolic process	0.0116491094420604
GO:0010033	response to organic substance	0.0138924756148232
GO:0004601	peroxidase activity	0.0138924756148232
GO:0016684	oxidoreductase activity, acting on peroxide as acceptor	0.0138924756148232
GO:0016324	apical plasma membrane	0.0138924756148232
GO:0045177	apical part of cell	0.016261466958797
GO:0042445	hormone metabolic process	0.016261466958797
GO:0016651	oxidoreductase activity, acting on NADH or NADPH	0.0190444920081179
GO:0050660	FAD binding	0.0192267960029108
GO:0006979	response to oxidative stress	0.019393736430353
GO:0050662	coenzyme binding	0.0416988764963919
GO:0020037	heme binding	0.0416988764963919
GO:0046906	tetrapyrrole binding	0.0416988764963919

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	1.04e-13	42
respiratory epithelial cell	2.90e-11	13
epithelial cell	9.19e-09	253
endodermal cell	1.20e-08	58
general ecto-epithelial cell	1.45e-08	14
acinar cell	1.35e-07	5
epithelial cell of alimentary canal	3.44e-07	20
epithelial cell of tracheobronchial tree	4.26e-07	9
epithelial cell of lower respiratory tract	4.26e-07	9
transitional epithelial cell	6.72e-07	4
urothelial cell	6.72e-07	4

Uber Anatomy

Ontology term	p-value	n
endoderm-derived structure	5.56e-16	160
endoderm	5.56e-16	160
presumptive endoderm	5.56e-16	160
adult organism	2.85e-12	114
respiratory system	3.12e-12	74
orifice	8.83e-12	36
oral opening	2.71e-10	22
digestive system	2.75e-09	145
digestive tract	2.75e-09	145
primitive gut	2.75e-09	145
extraembryonic membrane	2.82e-09	14
membranous layer	2.82e-09	14
mouth	4.79e-09	29
stomodeum	4.79e-09	29
surface structure	5.61e-09	99
transitional epithelium	2.69e-08	6
respiratory tract	6.40e-08	54
saliva-secreting gland	7.75e-08	6
gland of oral region	7.75e-08	6
gland of foregut	7.75e-08	6
oral gland	7.75e-08	6
oral cavity	7.75e-08	6
thoracic cavity element	1.02e-07	34
thoracic cavity	1.02e-07	34
urothelium	1.03e-07	5
anatomical space	1.22e-07	95
anterior region of body	2.15e-07	62
craniocervical region	2.15e-07	62
thoracic segment organ	2.33e-07	35
organ	4.50e-07	503

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.