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Coexpression cluster:C2193

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Full id: C2193_Burkitt_lymphoma_Sebocyte_Keratinocyte_Tracheal_Gingival_Bronchial



Phase1 CAGE Peaks

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


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


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 clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.0214529
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.0695829
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.00636811
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.11.4709
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.182167
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.11.29536
MA0105.10.232357
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.12.05538
MA0144.10.430413
MA0145.10.195821
MA0146.10.061409
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.257871
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.21.05083
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.10.180766
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.11.57817
MA0163.10.0725493
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.20.000248021
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

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 clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.