Coexpression cluster:C2984

Full id: C2984_parotid_duodenum_small_temporal_trachea_colon_tongue

Phase1 CAGE Peaks

Hg19::chr10:124320267..124320273,+	p1@DMBT1
Hg19::chr17:70030407..70030411,-	p1@ENST00000543512
Hg19::chr7:141811505..141811536,+	p1@LOC93432

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:0030670	phagocytic vesicle membrane	0.00206052042858825
GO:0043152	induction of bacterial agglutination	0.00206052042858825
GO:0019731	antibacterial humoral response	0.00247255172797302
GO:0019730	antimicrobial humoral response	0.00247255172797302
GO:0045335	phagocytic vesicle	0.00247255172797302
GO:0030666	endocytic vesicle membrane	0.00412073758078951
GO:0048306	calcium-dependent protein binding	0.00529785721923082
GO:0008329	pattern recognition receptor activity	0.00618056047368765
GO:0030139	endocytic vesicle	0.0100705417910804
GO:0030855	epithelial cell differentiation	0.0148281045208829
GO:0002009	morphogenesis of an epithelium	0.0235807867716901
GO:0005044	scavenger receptor activity	0.0237493405768202
GO:0006959	humoral immune response	0.0237493405768202
GO:0042742	defense response to bacterium	0.0246851208649812
GO:0030659	cytoplasmic vesicle membrane	0.0246851208649812
GO:0009617	response to bacterium	0.0246851208649812
GO:0044433	cytoplasmic vesicle part	0.0246851208649812
GO:0012506	vesicle membrane	0.0246851208649812
GO:0045087	innate immune response	0.0246851208649812
GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	0.0390409815926034
GO:0051707	response to other organism	0.0401816159514654
GO:0016798	hydrolase activity, acting on glycosyl bonds	0.0401816159514654
GO:0045786	negative regulation of progression through cell cycle	0.0401816159514654
GO:0009607	response to biotic stimulus	0.0494138478198072

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
adult organism	1.09e-17	114
subdivision of digestive tract	6.01e-14	118
digestive system	1.21e-11	145
digestive tract	1.21e-11	145
primitive gut	1.21e-11	145
major salivary gland	5.03e-11	2
open tracheal system trachea	1.74e-10	2
throat	2.01e-10	2
endoderm-derived structure	4.47e-10	160
endoderm	4.47e-10	160
presumptive endoderm	4.47e-10	160
small intestine	1.54e-09	4
intestine	2.82e-09	17
gastrointestinal system	2.51e-08	25
saliva-secreting gland	5.05e-08	6
gland of oral region	5.05e-08	6
gland of foregut	5.05e-08	6
oral gland	5.05e-08	6
oral cavity	5.05e-08	6
organ system subdivision	6.17e-08	223
gland of gut	8.12e-08	10
chordate pharynx	1.48e-07	10
pharyngeal region of foregut	1.48e-07	10
foregut	1.77e-07	87
oral opening	2.26e-07	22
tongue	2.37e-07	3
gustatory system	2.37e-07	3
future tongue	2.37e-07	3
orifice	3.75e-07	36
pharynx	7.14e-07	11

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.