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Coexpression cluster:C1376

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Full id: C1376_Endothelial_adipose_Lymphatic_Aortic_Smooth_breast_Hepatic



Phase1 CAGE Peaks

Hg19::chr13:111855420..111855431,+p9@ARHGEF7
Hg19::chr14:63671154..63671198,+p1@RHOJ
Hg19::chr14:63671393..63671437,+p2@RHOJ
Hg19::chr1:79472365..79472443,-p1@ELTD1
Hg19::chr6:153019023..153019043,+p2@MYCT1
Hg19::chr6:153019069..153019091,+p1@MYCT1


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


GO IDGO nameFDR corrected p-value
GO:0007266Rho protein signal transduction0.0128826114474228
GO:0007265Ras protein signal transduction0.0337873442676661



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
circulatory system3.52e-41113
cardiovascular system5.41e-40110
splanchnic layer of lateral plate mesoderm1.54e-3984
vasculature8.68e-3879
vascular system8.68e-3879
vessel6.16e-3669
blood vessel7.55e-3460
epithelial tube open at both ends7.55e-3460
blood vasculature7.55e-3460
vascular cord7.55e-3460
tube3.81e-33194
adult organism3.01e-31115
anatomical conduit6.70e-31241
anatomical cluster4.81e-29286
epithelial tube5.18e-27118
cell layer8.43e-25312
artery1.36e-2442
arterial blood vessel1.36e-2442
arterial system1.36e-2442
epithelium4.57e-24309
systemic artery1.34e-1933
systemic arterial system1.34e-1933
multi-cellular organism3.66e-15659
muscle tissue6.37e-1563
musculature6.37e-1563
musculature of body6.37e-1563
unilaminar epithelium1.36e-14138
skeletal muscle tissue2.73e-1461
striated muscle tissue2.73e-1461
myotome2.73e-1461
dermomyotome8.94e-1470
endothelium1.58e-1318
blood vessel endothelium1.58e-1318
cardiovascular system endothelium1.58e-1318
anatomical system3.28e-13625
aorta5.08e-1321
aortic system5.08e-1321
anatomical group5.97e-13626
primary circulatory organ1.82e-1227
regional part of brain2.20e-1259
neural plate3.03e-1286
presumptive neural plate3.03e-1286
neural tube3.08e-1257
neural rod3.08e-1257
future spinal cord3.08e-1257
neural keel3.08e-1257
organism subdivision3.26e-12365
multi-tissue structure1.24e-11347
somite1.28e-1183
paraxial mesoderm1.28e-1183
presomitic mesoderm1.28e-1183
presumptive segmental plate1.28e-1183
trunk paraxial mesoderm1.28e-1183
presumptive paraxial mesoderm1.28e-1183
neurectoderm1.33e-1190
heart1.69e-1124
primitive heart tube1.69e-1124
primary heart field1.69e-1124
anterior lateral plate mesoderm1.69e-1124
heart tube1.69e-1124
heart primordium1.69e-1124
cardiac mesoderm1.69e-1124
cardiogenic plate1.69e-1124
heart rudiment1.69e-1124
central nervous system2.37e-1182
regional part of nervous system3.76e-1194
nervous system3.76e-1194
simple squamous epithelium1.02e-1022
brain2.63e-1069
future brain2.63e-1069
anterior neural tube1.03e-0942
squamous epithelium2.37e-0925
regional part of forebrain2.94e-0941
forebrain2.94e-0941
future forebrain2.94e-0941
embryo5.13e-09612


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#235357.498296090745349.22669120642035e-050.00134303331415656
GATA2#262448.496621155702660.0004993024497617180.00440949167517877
JUN#372548.341886128224220.0005360662548571720.00463232033683834
POLR2A#543062.147453176558070.01019570676818780.0380092600093795



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.