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Coexpression cluster:C3784

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Full id: C3784_Endothelial_Alveolar_Renal_Sebocyte_Fibroblast_Mesothelial_Prostate



Phase1 CAGE Peaks

Hg19::chr19:3971050..3971128,-p1@DAPK3
Hg19::chr1:16085244..16085253,+p3@FBLIM1
Hg19::chr1:16085263..16085314,+p1@FBLIM1


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
embryonic cell1.94e-31250
mesodermal cell1.51e-28121
contractile cell8.85e-1659
muscle cell8.79e-1455
muscle precursor cell1.07e-1358
myoblast1.07e-1358
multi-potent skeletal muscle stem cell1.07e-1358
smooth muscle cell1.16e-1343
smooth muscle myoblast1.16e-1343
meso-epithelial cell1.49e-1345
electrically responsive cell1.05e-1261
electrically active cell1.05e-1261
lining cell1.05e-1258
barrier cell1.05e-1258
epithelial cell1.52e-12253
non-terminally differentiated cell3.64e-12106
endothelial cell6.98e-1236
vascular associated smooth muscle cell1.56e-1132
endothelial cell of vascular tree1.61e-1024
fibroblast4.70e-0976
blood vessel endothelial cell9.56e-0918
embryonic blood vessel endothelial progenitor cell9.56e-0918
squamous epithelial cell1.14e-0863
somatic cell1.63e-08588
animal cell2.56e-08679
eukaryotic cell2.56e-08679
cardiocyte1.14e-0716
epithelial cell of nephron1.15e-0715
Uber Anatomy
Ontology termp-valuen
splanchnic layer of lateral plate mesoderm2.78e-2783
vasculature3.56e-2678
vascular system3.56e-2678
epithelial tube8.54e-25117
vessel1.19e-2268
circulatory system3.12e-22112
cardiovascular system1.23e-21109
cell layer1.56e-21309
epithelium3.38e-21306
epithelial tube open at both ends1.19e-2059
blood vessel1.19e-2059
blood vasculature1.19e-2059
vascular cord1.19e-2059
multi-cellular organism9.46e-18656
anatomical cluster1.28e-17373
unilaminar epithelium1.62e-16148
artery5.53e-1642
arterial blood vessel5.53e-1642
arterial system5.53e-1642
epithelial vesicle1.06e-1578
mesenchyme1.72e-15160
entire embryonic mesenchyme1.72e-15160
organism subdivision1.99e-15264
multilaminar epithelium2.33e-1583
anatomical system3.46e-15624
anatomical group5.30e-15625
anatomical conduit2.00e-14240
trunk mesenchyme6.14e-14122
multi-tissue structure8.74e-14342
trunk5.63e-13199
dense mesenchyme tissue1.04e-1273
somite1.59e-1271
presomitic mesoderm1.59e-1271
presumptive segmental plate1.59e-1271
dermomyotome1.59e-1271
trunk paraxial mesoderm1.59e-1271
muscle tissue2.24e-1264
musculature2.24e-1264
musculature of body2.24e-1264
paraxial mesoderm2.38e-1272
presumptive paraxial mesoderm2.38e-1272
skeletal muscle tissue3.07e-1262
striated muscle tissue3.07e-1262
myotome3.07e-1262
systemic artery8.06e-1233
systemic arterial system8.06e-1233
compound organ8.29e-1268
tube1.33e-10192
developing anatomical structure1.01e-09581
embryo1.51e-09592
primary circulatory organ2.23e-0927
heart6.14e-0924
primitive heart tube6.14e-0924
primary heart field6.14e-0924
anterior lateral plate mesoderm6.14e-0924
heart tube6.14e-0924
heart primordium6.14e-0924
cardiac mesoderm6.14e-0924
cardiogenic plate6.14e-0924
heart rudiment6.14e-0924
blood vessel endothelium9.56e-0918
endothelium9.56e-0918
cardiovascular system endothelium9.56e-0918
urinary system structure1.41e-0847
primordium1.60e-08160
renal system1.61e-0848
embryonic structure2.77e-08564
simple squamous epithelium4.59e-0822
surface structure7.98e-0899
nephron epithelium1.15e-0715
renal tubule1.15e-0715
nephron tubule1.15e-0715


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
SRF#6722313.79717826216780.0003806615025800190.00375020344004854



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.