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Coexpression cluster:C4194

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Full id: C4194_Mast_immature_epididymis_colon_Mesothelial_leiomyoblastoma_signet



Phase1 CAGE Peaks

  Short description
Hg19::chr2:224702243..224702256,- p2@AP1S3
Hg19::chr2:224702257..224702266,- p5@AP1S3
Hg19::chr2:224702270..224702326,- p1@AP1S3


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
epithelial cell6.06e-27253
endo-epithelial cell3.18e-1442
endodermal cell4.63e-1258
animal cell3.39e-07679
eukaryotic cell3.39e-07679
epithelial cell of alimentary canal9.34e-0720
Uber Anatomy
Ontology termp-valuen
urinary system structure3.49e-0847
renal system9.19e-0848
respiratory tract2.01e-0754
kidney4.28e-0726
kidney mesenchyme4.28e-0726
upper urinary tract4.28e-0726
kidney rudiment4.28e-0726
kidney field4.28e-0726
endoderm-derived structure6.51e-07160
endoderm6.51e-07160
presumptive endoderm6.51e-07160
respiratory system9.70e-0774
Disease
Ontology termp-valuen
carcinoma1.79e-15106
cell type cancer8.04e-12143
disease of cellular proliferation9.36e-08239
cancer2.11e-07235
squamous cell carcinoma4.97e-0714


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)

{{{tfbs_overrepresentation_jaspar}}}



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
CTCF#1066435.360256373075030.0064925092527670.0280183122122943
E2F1#186934.907389214879320.008460985347239390.0326253220852994
EGR1#195834.988179094810140.008056488137383440.0321431624930355
MYC#460935.22228187160940.007020843755740150.0295224826269576
NFKB1#479035.488063424193840.006049381815655430.0270157952384007
SIN3A#2594235.408884726815140.006318961977991520.0277498137254838
TCF12#6938310.63446490218640.0008313523990202070.00630312981497433
YY1#752834.911170749853860.008441455341808260.0330144230992777
ZEB1#6935316.88843201754390.0002075486917327580.00243197327677297
ZNF143#7702313.50087655222790.0004062804962997170.00389852340619681
ZNF263#1012738.221841637010680.001799043925565870.0109665761128917



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.