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Coexpression cluster:C4027

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Full id: C4027_Wilms_Endothelial_mesothelioma_Renal_mesenchymal_leiomyoma_Fibroblast



Phase1 CAGE Peaks

Hg19::chr20:33759838..33759845,+p5@PROCR
Hg19::chr20:33759854..33759916,+p1@PROCR
Hg19::chr20:33759924..33759940,+p6@PROCR


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><br>


Cell Type
Ontology termp-valuen
mesodermal cell9.71e-24121
embryonic cell1.07e-18250
endothelial cell5.10e-1636
meso-epithelial cell6.43e-1645
endothelial cell of vascular tree1.91e-1524
lining cell9.01e-1458
barrier cell9.01e-1458
blood vessel endothelial cell3.49e-1318
embryonic blood vessel endothelial progenitor cell3.49e-1318
contractile cell3.53e-1159
muscle precursor cell6.41e-1158
myoblast6.41e-1158
multi-potent skeletal muscle stem cell6.41e-1158
epithelial cell1.34e-10253
muscle cell1.43e-1055
smooth muscle cell2.28e-0943
smooth muscle myoblast2.28e-0943
squamous epithelial cell2.95e-0963
non-terminally differentiated cell8.74e-09106
fibroblast9.78e-0976
electrically responsive cell1.75e-0861
electrically active cell1.75e-0861
vascular associated smooth muscle cell6.99e-0832
endothelial cell of artery1.19e-079
kidney cell5.11e-0717
kidney epithelial cell5.11e-0717
Uber Anatomy
Ontology termp-valuen
vasculature1.58e-2478
vascular system1.58e-2478
vessel2.36e-2468
epithelial tube open at both ends4.75e-2259
blood vessel4.75e-2259
blood vasculature4.75e-2259
vascular cord4.75e-2259
splanchnic layer of lateral plate mesoderm8.97e-2283
epithelial tube1.83e-20117
cardiovascular system1.95e-16109
circulatory system2.77e-16112
organism subdivision3.26e-16264
trunk2.48e-15199
artery5.04e-1542
arterial blood vessel5.04e-1542
arterial system5.04e-1542
unilaminar epithelium3.52e-14148
epithelial vesicle4.21e-1478
squamous epithelium1.39e-1325
blood vessel endothelium3.49e-1318
endothelium3.49e-1318
cardiovascular system endothelium3.49e-1318
simple squamous epithelium7.20e-1322
systemic artery8.06e-1333
systemic arterial system8.06e-1333
multilaminar epithelium1.34e-1283
multi-cellular organism6.85e-12656
mesenchyme2.00e-11160
entire embryonic mesenchyme2.00e-11160
somite3.21e-1171
presomitic mesoderm3.21e-1171
presumptive segmental plate3.21e-1171
dermomyotome3.21e-1171
trunk paraxial mesoderm3.21e-1171
skeletal muscle tissue3.48e-1162
striated muscle tissue3.48e-1162
myotome3.48e-1162
muscle tissue4.58e-1164
musculature4.58e-1164
musculature of body4.58e-1164
paraxial mesoderm1.10e-1072
presumptive paraxial mesoderm1.10e-1072
dense mesenchyme tissue1.35e-1073
cell layer3.25e-10309
anatomical system4.55e-10624
epithelium4.73e-10306
anatomical group7.51e-10625
trunk mesenchyme1.16e-09122
compound organ3.98e-0968
anatomical cluster6.98e-09373
aorta1.06e-0821
aortic system1.06e-0821
mesoderm4.20e-08315
mesoderm-derived structure4.20e-08315
presumptive mesoderm4.20e-08315
endothelial tube1.19e-079
arterial system endothelium1.19e-079
endothelium of artery1.19e-079
subdivision of trunk2.25e-07112
anatomical space3.41e-0795
body cavity precursor3.55e-0754


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
FOS#235338.99795530889440.001372499272417130.00898529753099558
GATA1#2623313.56030814380040.0004009615963782630.00388316284904946
GATA2#2624312.7449317335540.0004829527704283790.00437232180918598
MAX#414936.452555509007120.003721913834265510.0186818358695081
SPI1#668838.204323508522730.001810593189410520.0109178142095176
STAT3#6774310.51946499715420.0008589184530415310.006432741793991
ZNF263#1012738.221841637010680.001799043925565870.0109569832366558



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.