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Coexpression cluster:C3472

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Full id: C3472_nasal_Keratinocyte_esophagus_tongue_keratoacanthoma_tonsil_Gingival



Phase1 CAGE Peaks

Hg19::chr15:101069102..101069112,-p2@CERS3
Hg19::chr15:101069113..101069169,-p1@CERS3
Hg19::chr15:101069186..101069200,-p4@CERS3


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


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


No GOStat results

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>


Cell Type
Ontology termp-valuen
endo-epithelial cell1.37e-2442
general ecto-epithelial cell3.24e-2014
epithelial cell of alimentary canal2.29e-1820
endodermal cell4.10e-1858
acinar cell9.89e-155
epithelial cell6.23e-13253
ecto-epithelial cell3.14e-1234
protein secreting cell3.24e-126
gingival epithelial cell5.91e-103
epithelial cell of Malassez9.52e-103
respiratory epithelial cell1.42e-0913
acinar cell of salivary gland2.96e-093
stratified squamous epithelial cell1.29e-086
keratin accumulating cell1.29e-086
stratified epithelial cell1.29e-086
keratinizing barrier epithelial cell1.29e-086
epithelial fate stem cell1.29e-086
stratified epithelial stem cell1.29e-086
surface ectodermal cell1.29e-086
epidermal cell1.65e-089
glandular epithelial cell5.12e-089
corneal epithelial cell3.24e-072
sebum secreting cell3.66e-072
epithelial cell of sweat gland3.66e-072
epithelial cell of skin gland3.66e-072
acinar cell of sebaceous gland3.66e-072
squamous epithelial cell4.40e-0763
CD1a-positive Langerhans cell5.73e-072
immature CD1a-positive Langerhans cell5.73e-072
transitional epithelial cell6.20e-074
urothelial cell6.20e-074
mammary gland epithelial cell6.60e-074
Uber Anatomy
Ontology termp-valuen
oral opening6.63e-1722
surface structure2.72e-1699
anterior region of body1.64e-1562
craniocervical region1.64e-1562
orifice9.51e-1536
mouth1.96e-1429
stomodeum1.96e-1429
respiratory system2.41e-1474
head9.45e-1356
pharynx6.66e-1211
endoderm-derived structure9.10e-11160
endoderm9.10e-11160
presumptive endoderm9.10e-11160
mouth mucosa3.22e-1013
subdivision of head4.04e-1049
gingival epithelium5.91e-103
chordate pharynx7.58e-1010
pharyngeal region of foregut7.58e-1010
tongue1.28e-093
gustatory system1.28e-093
future tongue1.28e-093
neck2.53e-0910
pharyngeal arch system5.57e-0918
mucosa2.89e-0820
respiratory tract3.79e-0854
digestive system1.75e-07145
digestive tract1.75e-07145
primitive gut1.75e-07145
jaw skeleton2.13e-074
splanchnocranium2.13e-074
skin gland3.66e-072
epidermis gland3.66e-072
gland of integumental system3.66e-072
sebaceous gland3.66e-072
skin sebaceous gland3.66e-072
sweat gland3.66e-072
sweat gland placode3.66e-072
sebaceous gland placode3.66e-072
mammary gland6.60e-074
mammary bud6.60e-074
mammary ridge6.60e-074
mammary placode6.60e-074
skin epidermis6.81e-0715
outer epithelium6.81e-0715
enveloping layer of ectoderm6.81e-0715
mucosa of oral region8.47e-074
respiratory system mucosa8.47e-074
Disease
Ontology termp-valuen
squamous cell carcinoma3.73e-0914


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


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTCF#1066435.360256373075030.0064925092527670.0278949800004004



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


This analysis result is provided for C0 - C305 clusters.