Coexpression cluster:C1597

Full id: C1597_tongue_esophagus_tonsil_salivary_Urothelial_uterus_Sebocyte

Phase1 CAGE Peaks

Hg19::chr10:88780049..88780051,+	p1@FAM25A p1@FAM25B p1@FAM25C p1@FAM25G
Hg19::chr18:28682042..28682065,-	p1@DSC2
Hg19::chr1:152881014..152881031,+	p1@IVL
Hg19::chr1:152956549..152956566,+	p1@SPRR1A
Hg19::chr5:175837706..175837718,-	p@chr5:175837706..175837718 -

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:0001533	cornified envelope	4.97273171415869e-05
GO:0018149	peptide cross-linking	4.97273171415869e-05
GO:0030216	keratinocyte differentiation	4.97273171415869e-05
GO:0031424	keratinization	6.02634697148427e-05
GO:0009913	epidermal cell differentiation	8.0631044571239e-05
GO:0048730	epidermis morphogenesis	8.48377189719717e-05
GO:0048729	tissue morphogenesis	0.000125121378813316
GO:0030674	protein binding, bridging	0.000175335735425548
GO:0008544	epidermis development	0.000343951134968523
GO:0007398	ectoderm development	0.000362182563126683
GO:0018153	isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine	0.000896639637616591
GO:0018262	isopeptide cross-linking	0.000896639637616591
GO:0018199	peptidyl-glutamine modification	0.000896639637616591
GO:0009888	tissue development	0.00112951219199769
GO:0010224	response to UV-B	0.00233098856281588
GO:0018205	peptidyl-lysine modification	0.00327766317991456
GO:0009653	anatomical structure morphogenesis	0.0106752079742699
GO:0009411	response to UV	0.0106752079742699
GO:0048513	organ development	0.0114829820279232
GO:0005856	cytoskeleton	0.0167343191641621
GO:0048731	system development	0.020371068107999
GO:0009416	response to light stimulus	0.0214083531263655
GO:0048869	cellular developmental process	0.0225762523406492
GO:0030154	cell differentiation	0.0225762523406492
GO:0009314	response to radiation	0.0234772039668322
GO:0048856	anatomical structure development	0.0254717113136489
GO:0018193	peptidyl-amino acid modification	0.0260273918288617
GO:0043687	post-translational protein modification	0.0292534242733274
GO:0007275	multicellular organismal development	0.0298465535499906
GO:0009628	response to abiotic stimulus	0.0319013040474445
GO:0005911	intercellular junction	0.0323614306114214
GO:0006464	protein modification process	0.0361448543059518
GO:0007156	homophilic cell adhesion	0.0361448543059518
GO:0005515	protein binding	0.0361448543059518
GO:0043412	biopolymer modification	0.0366866041825411
GO:0043232	intracellular non-membrane-bound organelle	0.0372597586169451
GO:0043228	non-membrane-bound organelle	0.0372597586169451
GO:0032502	developmental process	0.0472438379781197

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	1.50e-20	42
endodermal cell	3.31e-14	58
respiratory epithelial cell	2.86e-13	13
general ecto-epithelial cell	3.44e-13	14
epithelial cell	5.73e-13	253
acinar cell	4.55e-11	5
epithelial cell of alimentary canal	5.15e-10	20
Langerhans cell	3.90e-09	5
protein secreting cell	4.05e-09	6
transitional epithelial cell	1.99e-08	4
urothelial cell	1.99e-08	4
acinar cell of salivary gland	2.71e-07	3
ecto-epithelial cell	3.55e-07	34
epithelial cell of tracheobronchial tree	4.88e-07	9
epithelial cell of lower respiratory tract	4.88e-07	9
gingival epithelial cell	4.98e-07	3
epithelial cell of Malassez	7.70e-07	3

Uber Anatomy

Ontology term	p-value	n
endoderm-derived structure	4.96e-16	160
endoderm	4.96e-16	160
presumptive endoderm	4.96e-16	160
respiratory system	1.56e-14	74
orifice	5.82e-12	36
oral opening	3.49e-11	22
anterior region of body	3.67e-11	62
craniocervical region	3.67e-11	62
surface structure	3.09e-10	99
urothelium	7.50e-10	5
mouth	3.11e-09	29
stomodeum	3.11e-09	29
digestive system	3.79e-09	145
digestive tract	3.79e-09	145
primitive gut	3.79e-09	145
respiratory tract	2.43e-08	54
head	2.95e-08	56
transitional epithelium	3.99e-08	6
gingival epithelium	4.98e-07	3
tracheobronchial tree	5.35e-07	15
lower respiratory tract	5.35e-07	15
gland of gut	5.50e-07	10
subdivision of head	9.19e-07	49
trachea	9.30e-07	7
respiratory airway	9.30e-07	7

Disease

Ontology term	p-value	n
squamous cell carcinoma	8.27e-09	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.