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Coexpression cluster:C2193

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Full id: C2193_Burkitt_lymphoma_Sebocyte_Keratinocyte_Tracheal_Gingival_Bronchial



Phase1 CAGE Peaks

Hg19::chr12:122430019..122430039,+p@chr12:122430019..122430039
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Hg19::chr12:122430050..122430069,+p@chr12:122430050..122430069
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Hg19::chr12:122430074..122430090,+p@chr12:122430074..122430090
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Hg19::chr12:122430186..122430198,+p@chr12:122430186..122430198
+


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
respiratory epithelial cell1.18e-2013
endo-epithelial cell1.64e-1942
general ecto-epithelial cell3.03e-1614
endodermal cell3.62e-1558
epithelial cell1.94e-14253
epithelial cell of tracheobronchial tree2.92e-139
epithelial cell of lower respiratory tract2.92e-139
bronchial epithelial cell1.86e-083
duct epithelial cell2.00e-083
branched duct epithelial cell2.00e-083
tracheal epithelial cell2.00e-083
tracheoblast2.00e-083
epithelial cell of Malassez2.48e-083
gingival epithelial cell2.67e-083
precursor B cell4.62e-083
epithelial cell of alimentary canal6.14e-0820
epidermal cell4.79e-079
stratified squamous epithelial cell7.28e-076
keratin accumulating cell7.28e-076
stratified epithelial cell7.28e-076
keratinizing barrier epithelial cell7.28e-076
epithelial fate stem cell7.28e-076
stratified epithelial stem cell7.28e-076
surface ectodermal cell7.28e-076
squamous epithelial cell7.71e-0763
Disease
Ontology termp-valuen
squamous cell carcinoma2.48e-1214


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
BATF#10538318.26835134422770.0002681660105721290.00286633814124886
BCLAF1#9774421.65264761012184.54636978835329e-060.000141441261342219
EBF1#187948.9064668465690.00015887907472010.00199389229568524
EGR1#195844.988179094810140.001615011500076050.0101297331125123
EP300#203346.77394172622320.0004748459821442640.00433538242234153
GATA2#2624412.7449317335543.78864877853583e-050.000719946669908122
JUN#372539.384621894252250.001918994502030470.0112816136671861
MEF2A#4205418.74323090964418.0978922767748e-060.000224214149388675
MEF2C#4208330.9835158694685.56692972943475e-050.00094093635541744
NFKB1#479045.488063424193840.001102199566301980.0076675295080938
PBX3#5090421.91451268674414.33289161192893e-060.000136056183721661
SPI1#668848.204323508522730.000220661881527680.00249115838772775
STAT3#6774410.51946499715428.16377768286615e-050.00122944019815553
YY1#752844.911170749853860.00171871838055440.0106649176487862



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.

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