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Coexpression cluster:C3843

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Full id: C3843_merkel_pineal_small_heart_maxillary_skeletal_salivary



Phase1 CAGE Peaks

Hg19::chr1:10856639..10856662,-p2@CASZ1
Hg19::chr1:10856665..10856683,-p4@CASZ1
Hg19::chr1:10856694..10856715,-p3@CASZ1


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>disease_data<br>


Cell Type
Ontology termp-valuen
epithelial cell6.62e-16253
endo-epithelial cell2.21e-1442
endodermal cell5.30e-1058
epithelial cell of alimentary canal2.77e-0920
epithelial cell of lung9.58e-0819
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure9.82e-17160
endoderm9.82e-17160
presumptive endoderm9.82e-17160
digestive system2.73e-14145
digestive tract2.73e-14145
primitive gut2.73e-14145
subdivision of digestive tract2.99e-14118
epithelial fold1.30e-1147
respiratory system1.66e-1174
epithelial bud1.90e-1137
thoracic segment organ7.84e-1135
multi-cellular organism1.21e-10656
adult organism1.87e-10114
thoracic cavity element4.18e-1034
thoracic cavity4.18e-1034
organ system subdivision4.38e-10223
multi-tissue structure9.79e-10342
anatomical space1.03e-0995
lung1.82e-0922
respiratory tube1.82e-0922
respiration organ1.82e-0922
pair of lungs1.82e-0922
lung primordium1.82e-0922
lung bud1.82e-0922
organ4.43e-09503
embryo5.37e-09592
trunk region element1.68e-08101
anatomical cluster1.86e-08373
foregut1.93e-0887
orifice2.88e-0836
thoracic segment of trunk4.37e-0852
endo-epithelium4.59e-0882
organism subdivision8.84e-08264
respiratory tract epithelium9.58e-0819
lung epithelium9.58e-0819
developing anatomical structure1.95e-07581
gastrointestinal system2.47e-0725
respiratory tract2.48e-0754
immaterial anatomical entity2.76e-07117
renal system6.69e-0748
Disease
Ontology termp-valuen
cell type cancer2.97e-14143
carcinoma3.45e-14106
respiratory system cancer1.07e-0716
gastrointestinal system cancer2.29e-0714
lung cancer7.02e-0715
adenocarcinoma7.10e-0725


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
CTBP2#1488362.71700033932814.049570681927e-060.00012973408357355
EGR1#195834.988179094810140.008056488137383440.0320672115774301
EP300#203336.77394172622320.003216880500103790.0167456403603818
GABPB1#255337.067683836182170.002832212825417420.0154131350775765
GATA3#2625327.2365163572064.94721007899563e-050.00085106518438515
JUND#372736.994663941871030.002921845042734990.0156787018660124
NRF1#4899312.21027944771090.0005492172401020010.00471204299178616
RAD21#5885310.35503389545630.0009004912073565420.00664122598722617
RFX5#5993312.04791082719510.0005717246050312580.00484543909963966
SP1#666735.69838137814090.005403962701712170.0246531455293809
TCF7L2#6934310.77017656313730.0008003181298398380.00613824081386083
YY1#752834.911170749853860.008441455341808260.0329441035253956



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.