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Coexpression cluster:C2390

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Full id: C2390_Renal_Endothelial_Alveolar_Hepatic_Mesenchymal_Sebocyte_mesothelioma



Phase1 CAGE Peaks

Hg19::chr16:75285508..75285580,-p1@BCAR1
Hg19::chr16:75285587..75285599,-p6@BCAR1
Hg19::chr16:75285612..75285626,-p4@BCAR1
Hg19::chr16:75299845..75299883,-p2@BCAR1


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>


Uber Anatomy
Ontology termp-valuen
cell layer7.20e-28309
epithelium1.24e-26306
anatomical cluster1.60e-24373
anatomical conduit2.34e-23240
vasculature1.79e-2278
vascular system1.79e-2278
multi-cellular organism2.61e-20656
tube6.03e-20192
epithelial tube9.82e-19117
anatomical system3.30e-18624
multi-tissue structure5.30e-18342
anatomical group6.20e-18625
vessel6.44e-1868
organism subdivision3.99e-16264
epithelial tube open at both ends2.18e-1459
blood vessel2.18e-1459
blood vasculature2.18e-1459
vascular cord2.18e-1459
splanchnic layer of lateral plate mesoderm4.55e-1483
unilaminar epithelium1.98e-13148
blood vessel endothelium4.30e-1318
endothelium4.30e-1318
cardiovascular system endothelium4.30e-1318
trunk1.44e-12199
cardiovascular system3.38e-12109
circulatory system5.04e-12112
mesenchyme7.10e-12160
entire embryonic mesenchyme7.10e-12160
simple squamous epithelium2.59e-1122
embryo1.70e-10592
organ part2.72e-10218
trunk mesenchyme8.29e-10122
developing anatomical structure1.01e-09581
structure with developmental contribution from neural crest1.34e-09132
epithelial vesicle2.08e-0978
ectoderm-derived structure2.55e-09171
ectoderm2.55e-09171
presumptive ectoderm2.55e-09171
squamous epithelium3.59e-0925
ecto-epithelium1.72e-08104
embryonic structure4.71e-08564
germ layer4.99e-08560
germ layer / neural crest4.99e-08560
embryonic tissue4.99e-08560
presumptive structure4.99e-08560
germ layer / neural crest derived structure4.99e-08560
epiblast (generic)4.99e-08560
artery8.09e-0842
arterial blood vessel8.09e-0842
arterial system8.09e-0842
nephron epithelium8.94e-0815
renal tubule8.94e-0815
nephron tubule8.94e-0815
nephron8.94e-0815
uriniferous tubule8.94e-0815
nephrogenic mesenchyme8.94e-0815
neural plate1.51e-0782
presumptive neural plate1.51e-0782
parenchyma2.00e-0715
excretory tube2.44e-0716
kidney epithelium2.44e-0716
endothelial tube2.78e-079
arterial system endothelium2.78e-079
endothelium of artery2.78e-079
multilaminar epithelium4.55e-0783
dense mesenchyme tissue9.14e-0773


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
CCNT2#90534.752151182721970.01386206996689490.048717593474191
E2F4#187439.501045236463330.001850751034728270.0109265453542106
ETS1#211349.728760922202340.0001115955317418140.00154492652963723
FOXA1#316938.311064812039090.002740138182109850.0150350578754529
HEY1#2346244.040111043105710.00375304636917980.0185879646109342
MYC#460945.22228187160940.001344309395272740.00887081120445374
NFYB#4801312.56984494015230.000811456397697350.00618731800533793
POU2F2#545236.829593043306890.004860473775203740.0227562209444794
TAF1#687243.343046285745290.008005664898701650.0321912615545182
TBP#690843.706770687096390.005296377814784350.0243957132662196
YY1#752844.911170749853860.00171871838055440.0106750656524961
ZNF143#7702310.12565741417090.001534861610688180.00976542258657711



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.