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Coexpression cluster:C2967

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Full id: C2967_lung_Hepatocyte_hepatoma_hepatocellular_liver_mesothelioma_Intestinal



Phase1 CAGE Peaks

Hg19::chr10:101542462..101542535,+p1@ABCC2
Hg19::chr10:101542550..101542573,+p5@ABCC2
Hg19::chr10:101542585..101542592,+p6@ABCC2


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
melanocyte3.04e-1310
melanoblast3.04e-1310
metabolising cell4.80e-1312
endopolyploid cell4.80e-1312
parenchymal cell4.80e-1312
polyploid cell4.80e-1312
hepatocyte4.80e-1312
epithelial cell2.85e-10254
pigment cell6.50e-0914
Uber Anatomy
Ontology termp-valuen
larynx2.28e-169
subdivision of digestive tract5.43e-16129
endodermal part of digestive tract5.43e-16129
liver1.90e-1319
digestive gland1.90e-1319
liver bud1.90e-1319
hepatic diverticulum2.52e-1322
liver primordium2.52e-1322
epithelium of foregut-midgut junction2.91e-1325
anatomical boundary2.91e-1325
hepatobiliary system2.91e-1325
foregut-midgut junction2.91e-1325
septum transversum2.91e-1325
digestive system6.63e-13155
digestive tract6.63e-13155
primitive gut6.63e-13155
digestive tract diverticulum1.39e-1223
foregut1.68e-1298
mixed endoderm/mesoderm-derived structure7.11e-12130
endoderm-derived structure1.63e-11169
endoderm1.63e-11169
presumptive endoderm1.63e-11169
epithelial sac2.76e-1125
sac1.03e-1026
immune organ2.48e-1026
abdominal segment of trunk1.13e-0861
abdomen1.13e-0861
abdomen element3.03e-0855
abdominal segment element3.03e-0855
gut epithelium9.13e-0854
gastrointestinal system3.13e-0735
exocrine gland5.12e-0731
exocrine system5.12e-0731
Disease
Ontology termp-valuen
carcinoma3.65e-20106
cell type cancer2.81e-17143
cancer3.47e-09235
disease of cellular proliferation1.01e-08239


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
CEBPB#105137.971147625824820.001974187055288560.0114864691848068
EP300#203336.77394172622320.003216880500103790.0166716843266346
FOSL2#2355316.93020060456170.0002060162053171620.00242189627049967
FOXA1#3169311.08141974938550.000734755275698670.0057906056624429
FOXA2#3170324.63046375266526.68983856509345e-050.00106995413460918
GTF2F1#2962312.73966087675770.0004835525047438590.00432526036681602
HDAC2#3066313.41562023662630.0004140761399857210.00389671093746339
HNF4A#3172323.13229036295378.07584663437677e-050.00122414128686165
HNF4G#3174328.75342252644684.20470658818262e-050.000754787472264016
JUN#3725312.51282919233630.0005103313992726250.00442862492801277
MAX#414936.452555509007120.003721913834265510.0185587471442757
MXI1#460139.96157162875930.001011470541259020.00717886319120292
MYC#460935.22228187160940.007020843755740150.0292960126655378
NR3C1#2908314.9730233311730.0002978331194675480.00307700001623022
RXRA#6256320.07461713913330.0001235730348432220.00164783505949838
SP1#666735.69838137814090.005403962701712170.0245256588129722
STAT3#6774310.51946499715420.0008589184530415310.00641250870807095
TCF7L2#6934310.77017656313730.0008003181298398380.00611265358800226
TFAP2A#7020316.5186343730450.0002218033880766340.00247197994315821
TFAP2C#7022310.80922860986020.0007916746575753130.00612502478424388
USF1#739136.361499277207960.00388404057290560.0189359216410087
USF2#7392312.99219738506960.0004558979393427810.00420242938102566



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.