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Coexpression cluster:C3922

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Full id: C3922_Fibroblast_uterus_basal_mesenchymal_smooth_mature_amniotic



Phase1 CAGE Peaks

Hg19::chr1:203595903..203595934,+p2@ATP2B4
Hg19::chr1:203595941..203595970,+p1@ATP2B4
Hg19::chr1:203595980..203595991,+p4@ATP2B4


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
non-terminally differentiated cell1.31e-10180
fibroblast2.58e-1075
skin fibroblast3.20e-1023
muscle precursor cell3.41e-0757
myoblast3.41e-0757
multi-potent skeletal muscle stem cell3.41e-0757
muscle cell6.48e-0754
Uber Anatomy
Ontology termp-valuen
adult organism1.86e-11115
splanchnic layer of lateral plate mesoderm3.16e-1184
somite4.77e-1083
paraxial mesoderm4.77e-1083
presomitic mesoderm4.77e-1083
presumptive segmental plate4.77e-1083
trunk paraxial mesoderm4.77e-1083
presumptive paraxial mesoderm4.77e-1083
blood vessel2.14e-0960
epithelial tube open at both ends2.14e-0960
blood vasculature2.14e-0960
vascular cord2.14e-0960
circulatory system5.15e-09113
organism subdivision9.15e-09365
vessel1.54e-0869
cardiovascular system2.56e-08110
dermomyotome4.13e-0870
vasculature4.99e-0879
vascular system4.99e-0879
artery9.11e-0842
arterial blood vessel9.11e-0842
arterial system9.11e-0842
skin of body1.40e-0740
integument2.53e-0745
integumental system2.53e-0745
multilaminar epithelium3.25e-0782
muscle tissue3.81e-0763
musculature3.81e-0763
musculature of body3.81e-0763
systemic artery5.01e-0733
systemic arterial system5.01e-0733
surface structure5.54e-0795


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#90536.336201576962630.003930750035764890.0190136447123917
CEBPB#105137.971147625824820.001974187055288560.0115256370880028
E2F6#187635.017155731697390.00791769806886330.0322434870394609
EGR1#195834.988179094810140.008056488137383440.032083107015183
ELF1#199734.258097958807540.01295179875054610.0462562975655125
EP300#203336.77394172622320.003216880500103790.01675649788281
GABPB1#255337.067683836182170.002832212825417420.0154203667643504
GTF2F1#2962312.73966087675770.0004835525047438590.00434124817699165
IRF1#365937.63716375356390.002244692747297240.0128154739974294
JUN#3725312.51282919233630.0005103313992726250.00444413416231416
JUND#372736.994663941871030.002921845042734990.0156859553006168
MAFK#7975327.10073313782995.02195559325033e-050.000857847596014837
MAX#414936.452555509007120.003721913834265510.0186656883042908
MXI1#460139.96157162875930.001011470541259020.00720579617043322
MYC#460935.22228187160940.007020843755740150.0294690901457176
RAD21#5885310.35503389545630.0009004912073565420.00664310243731792
REST#597839.650028716128020.001112636247114590.00768027871859885
RFX5#5993312.04791082719510.0005717246050312580.00484858676612745
SMARCB1#6598318.25271578115740.000164397760679890.00203165752309159
SMC3#9126315.04493284493280.0002935825420371870.00309212052317686
SP1#666735.69838137814090.005403962701712170.0246703877520705
STAT3#6774310.51946499715420.0008589184530415310.00642905355960757
WRNIP1#568973109.8199643493767.53682839543883e-073.32266281465275e-05
ZBTB7A#5134137.35190930787590.002516255860282270.0140292144881497
ZNF263#1012738.221841637010680.001799043925565870.0109474071282511



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.