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Coexpression cluster:C2038

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Full id: C2038_adipose_heart_mature_lung_breast_Lymphatic_vagina



Phase1 CAGE Peaks

Hg19::chr10:116444107..116444116,-p33@ABLIM1
Hg19::chr10:116444143..116444213,-p6@ABLIM1
Hg19::chr10:116444216..116444241,-p10@ABLIM1
Hg19::chr5:66311078..66311108,+p@chr5:66311078..66311108
+


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
adult organism1.21e-49114
anatomical cluster1.03e-28373
anatomical conduit1.85e-24240
tube8.72e-19192
epithelium4.50e-18306
cell layer1.78e-17309
neural tube3.14e-1756
neural rod3.14e-1756
future spinal cord3.14e-1756
neural keel3.14e-1756
neural plate3.18e-1782
presumptive neural plate3.18e-1782
blood vessel endothelium5.59e-1718
endothelium5.59e-1718
cardiovascular system endothelium5.59e-1718
structure with developmental contribution from neural crest3.20e-16132
neurectoderm3.67e-1686
regional part of nervous system1.73e-1553
regional part of brain1.73e-1553
multi-cellular organism5.85e-15656
multi-tissue structure2.43e-14342
ecto-epithelium1.07e-13104
organ system subdivision1.26e-13223
brain3.87e-1368
future brain3.87e-1368
anatomical system5.51e-13624
anatomical group7.40e-13625
central nervous system1.47e-1281
squamous epithelium1.71e-1225
simple squamous epithelium1.90e-1222
regional part of forebrain7.32e-1241
forebrain7.32e-1241
anterior neural tube7.32e-1241
future forebrain7.32e-1241
nervous system7.36e-1189
pre-chordal neural plate8.69e-1161
brain grey matter3.37e-1034
gray matter3.37e-1034
telencephalon4.40e-1034
developing anatomical structure1.46e-09581
embryonic structure1.70e-09564
endothelial tube2.07e-099
arterial system endothelium2.07e-099
endothelium of artery2.07e-099
embryo3.34e-09592
regional part of telencephalon3.50e-0932
ectoderm-derived structure4.02e-09171
ectoderm4.02e-09171
presumptive ectoderm4.02e-09171
cerebral hemisphere4.02e-0932
organ4.16e-09503
regional part of cerebral cortex5.08e-0922
germ layer7.45e-09560
germ layer / neural crest7.45e-09560
embryonic tissue7.45e-09560
presumptive structure7.45e-09560
germ layer / neural crest derived structure7.45e-09560
epiblast (generic)7.45e-09560
neocortex3.19e-0820
organ part6.78e-08218
cerebral cortex2.86e-0725
pallium2.86e-0725
vasculature3.45e-0778
vascular system3.45e-0778
circulatory system5.69e-07112
posterior neural tube8.85e-0715
chordal neural plate8.85e-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
CEBPB#105135.978360719368610.007153832484726970.0297108645513342
FOS#235336.74846648167080.005032452776317940.0234510233582844
MAFF#23764342.23651736745892.20786227449124e-050.000483714973957606
MAFK#7975320.32554985337240.0001953213688931110.00235013461357461
NR3C1#2908311.22976749837980.001131672068063850.00775122633240562
STAT1#6772315.52994062289940.000434088655175550.00404711525244414
STAT3#6774410.51946499715428.16377768286615e-050.00122820048605713
TFAP2C#702238.106921457395170.002947011739866440.0157128323003835



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.