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Coexpression cluster:C4568

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Full id: C4568_liposarcoma_lung_Endothelial_mesothelioma_placenta_hepatocellular_adrenal



Phase1 CAGE Peaks

Hg19::chr6:142622791..142622804,+p6@GPR126
Hg19::chr6:142623063..142623261,+p1@GPR126
Hg19::chr6:142623429..142623443,+p16@GPR126


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
epithelial cell3.76e-36254
endodermal cell6.22e-1259
embryonic cell2.50e-10248
mesothelial cell2.60e-0919
squamous epithelial cell2.81e-0962
lining cell4.24e-0857
barrier cell4.24e-0857
kidney cell1.70e-0718
kidney epithelial cell1.70e-0718
endo-epithelial cell3.01e-0743
epithelial cell of nephron9.22e-0716
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure5.67e-22169
endoderm5.67e-22169
presumptive endoderm5.67e-22169
subdivision of digestive tract1.10e-21129
endodermal part of digestive tract1.10e-21129
multi-tissue structure2.58e-19347
digestive system1.86e-18155
digestive tract1.86e-18155
primitive gut1.86e-18155
trunk region element1.52e-17107
mixed endoderm/mesoderm-derived structure2.39e-16130
multi-cellular organism5.74e-16659
mesenchyme6.68e-16238
entire embryonic mesenchyme6.68e-16238
epithelium3.02e-15309
immaterial anatomical entity4.97e-15126
subdivision of trunk1.78e-14113
cell layer2.46e-14312
endo-epithelium4.24e-1482
anatomical system6.49e-14625
anatomical group8.59e-14626
abdomen element1.02e-1355
abdominal segment element1.02e-1355
organ1.08e-13511
anatomical conduit1.19e-13241
anatomical cluster2.48e-13286
foregut2.63e-1398
intermediate mesoderm5.38e-1237
organism subdivision6.35e-12365
embryo7.53e-12612
embryonic structure2.62e-11605
developing anatomical structure2.62e-11605
abdominal segment of trunk2.67e-1161
abdomen2.67e-1161
germ layer4.54e-11604
embryonic tissue4.54e-11604
presumptive structure4.54e-11604
epiblast (generic)4.54e-11604
organ part6.29e-11219
trunk1.85e-10216
primordium1.85e-10168
gland5.27e-1059
renal system1.42e-0945
gut epithelium1.70e-0954
anatomical space1.75e-09104
tube1.87e-09194
epithelial tube2.39e-09118
urinary system structure2.93e-0944
sac6.04e-0926
epithelial sac9.48e-0925
duct1.23e-0826
epithelium of foregut-midgut junction2.44e-0825
anatomical boundary2.44e-0825
hepatobiliary system2.44e-0825
foregut-midgut junction2.44e-0825
septum transversum2.44e-0825
exocrine gland4.77e-0831
exocrine system4.77e-0831
gastrointestinal system4.93e-0835
digestive tract diverticulum7.98e-0823
urogenital ridge9.75e-0820
cortex1.14e-0716
hepatic diverticulum1.25e-0722
liver primordium1.25e-0722
unilaminar epithelium1.61e-07138
cavitated compound organ2.14e-0732
compound organ2.17e-0769
epithelial fold2.34e-0751
epithelial bud3.98e-0737
mesonephros4.73e-0718
pronephros4.73e-0718
nephrogenic cord4.73e-0718
pronephric mesoderm4.73e-0718
rostral part of nephrogenic cord4.73e-0718
presumptive pronephric mesoderm4.73e-0718
excretory tube5.89e-0717
mesonephric epithelium5.89e-0717
mesonephric tubule5.89e-0717
nephric duct5.89e-0717
kidney epithelium5.89e-0717
renal duct5.89e-0717
mesonephric duct5.89e-0717
pronephric duct5.89e-0717
nephron epithelium9.22e-0716
nephron9.22e-0716
uriniferous tubule9.22e-0716
metanephric mesenchyme9.22e-0716
nephrogenic mesenchyme9.22e-0716

Disease
Ontology termp-valuen


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#1066435.360256373075030.0064925092527670.0281065771543931
FOXA1#3169311.08141974938550.000734755275698670.00583640905374911
HNF4A#3172215.42152690863580.005444210486686610.0246890099443796



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.