Coexpression cluster:C3869

Full id: C3869_tongue_epidermoid_esophagus_Urothelial_Corneal_cervical_throat

Phase1 CAGE Peaks

Hg19::chr1:153285395..153285434,-	p@chr1:153285395..153285434 -
Hg19::chr2:241831424..241831455,-	p5@C2orf54
Hg19::chr8:143867946..143867962,-	p1@LY6D

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:0048503	GPI anchor binding	0.0393265041799129
GO:0035091	phosphoinositide binding	0.0393265041799129
GO:0005543	phospholipid binding	0.0393265041799129
GO:0008289	lipid binding	0.0423878488166725
GO:0005624	membrane fraction	0.0423878488166725
GO:0000267	cell fraction	0.0423878488166725
GO:0022610	biological adhesion	0.0423878488166725
GO:0007155	cell adhesion	0.0423878488166725

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
endo-epithelial cell	7.94e-25	42
epithelial cell of alimentary canal	7.33e-18	20
endodermal cell	3.21e-16	58
respiratory epithelial cell	7.23e-14	13
general ecto-epithelial cell	1.69e-13	14
acinar cell	3.20e-13	5
protein secreting cell	6.11e-11	6
epithelial cell	1.99e-09	253
acinar cell of salivary gland	1.43e-08	3
bronchial epithelial cell	2.36e-08	3
gingival epithelial cell	4.73e-08	3
glandular epithelial cell	3.90e-07	9
epidermal cell	4.56e-07	9
stratified squamous epithelial cell	5.38e-07	6
keratin accumulating cell	5.38e-07	6
stratified epithelial cell	5.38e-07	6
keratinizing barrier epithelial cell	5.38e-07	6
epithelial fate stem cell	5.38e-07	6
stratified epithelial stem cell	5.38e-07	6
surface ectodermal cell	5.38e-07	6
ecto-epithelial cell	7.43e-07	34
epithelial cell of tracheobronchial tree	7.87e-07	9
epithelial cell of lower respiratory tract	7.87e-07	9
transitional epithelial cell	8.50e-07	4
urothelial cell	8.50e-07	4

Uber Anatomy

Ontology term	p-value	n
endoderm-derived structure	1.36e-18	160
endoderm	1.36e-18	160
presumptive endoderm	1.36e-18	160
respiratory system	5.88e-17	74
oral opening	1.40e-16	22
orifice	1.56e-15	36
mouth	8.83e-14	29
stomodeum	8.83e-14	29
anterior region of body	1.06e-13	62
craniocervical region	1.06e-13	62
surface structure	1.72e-13	99
digestive system	1.06e-12	145
digestive tract	1.06e-12	145
primitive gut	1.06e-12	145
neck	8.13e-11	10
head	4.88e-10	56
subdivision of head	2.21e-09	49
respiratory tract	5.35e-09	54
subdivision of digestive tract	1.37e-08	118
urothelium	1.37e-08	5
lower respiratory tract epithelium	2.36e-08	3
epithelium of bronchus	2.36e-08	3
gland of gut	2.44e-08	10
mucosa	3.23e-08	20
mouth mucosa	3.45e-08	13
gingival epithelium	4.73e-08	3
pharynx	9.46e-08	11
foregut	2.80e-07	87
tracheobronchial tree	3.03e-07	15
lower respiratory tract	3.03e-07	15
transitional epithelium	3.84e-07	6
saliva-secreting gland	5.55e-07	6
gland of oral region	5.55e-07	6
gland of foregut	5.55e-07	6
oral gland	5.55e-07	6
oral cavity	5.55e-07	6

Disease

Ontology term	p-value	n
squamous cell carcinoma	1.12e-07	14

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.