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Coexpression cluster:C2529

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Full id: C2529_Mesenchymal_Corneal_Urothelial_Cardiac_salivary_Sebocyte_Esophageal



Phase1 CAGE Peaks

Hg19::chr1:154943142..154943157,-p3@SHC1
Hg19::chr1:154943181..154943192,-p4@SHC1
Hg19::chr1:154943212..154943230,-p1@SHC1
Hg19::chr1:154943232..154943245,-p5@SHC1


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
organism subdivision4.90e-25365
cell layer5.42e-23312
trunk mesenchyme1.10e-22143
epithelium1.41e-22309
multilaminar epithelium9.39e-2282
trunk2.14e-21216
multi-tissue structure4.08e-20347
somite2.13e-1983
paraxial mesoderm2.13e-1983
presomitic mesoderm2.13e-1983
presumptive segmental plate2.13e-1983
trunk paraxial mesoderm2.13e-1983
presumptive paraxial mesoderm2.13e-1983
vasculature7.41e-1979
vascular system7.41e-1979
mesenchyme4.73e-18238
entire embryonic mesenchyme4.73e-18238
epithelial tube1.45e-17118
dermomyotome1.62e-1770
unilaminar epithelium7.28e-17138
splanchnic layer of lateral plate mesoderm9.03e-1684
vessel1.71e-1569
multi-cellular organism1.84e-15659
skeletal muscle tissue2.32e-1561
striated muscle tissue2.32e-1561
myotome2.32e-1561
muscle tissue1.96e-1463
musculature1.96e-1463
musculature of body1.96e-1463
blood vessel3.14e-1460
epithelial tube open at both ends3.14e-1460
blood vasculature3.14e-1460
vascular cord3.14e-1460
anatomical cluster5.10e-14286
anatomical group7.52e-13626
anatomical system8.30e-13625
artery8.56e-1342
arterial blood vessel8.56e-1342
arterial system8.56e-1342
surface structure1.17e-1295
cardiovascular system1.31e-12110
circulatory system9.24e-12113
anatomical conduit9.63e-12241
embryo1.45e-11612
embryonic structure1.89e-11605
developing anatomical structure1.89e-11605
germ layer2.03e-11604
embryonic tissue2.03e-11604
presumptive structure2.03e-11604
epiblast (generic)2.03e-11604
systemic artery1.77e-1033
systemic arterial system1.77e-1033
ectodermal placode3.16e-0829
primordium5.49e-08168
integument8.23e-0845
integumental system8.23e-0845
tube9.62e-08194
subdivision of trunk4.12e-07113
subdivision of head5.13e-0748
skin of body9.50e-0740


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#235348.99795530889440.0001525147711168630.00194915445186907
FOSL2#2355416.93020060456171.2165416097647e-050.000303957868856975
FOXA1#3169411.08141974938556.62943068949433e-050.00107161602194722
FOXA2#3170424.63046375266522.71504128667089e-069.44243080048687e-05
GATA2#2624412.7449317335543.78864877853583e-050.00072191696730798
GTF2B#2959431.94382993432429.59435337635006e-074.08822795704865e-05
HEY1#2346244.040111043105710.00375304636917980.0186144469654162
JUND#372746.994663941871030.000417684217818580.00391795599288258
MAFK#7975427.10073313782991.85228494563408e-066.855095231647e-05
REST#597849.650028716128020.0001152825614219170.00157098061486738
TAF1#687243.343046285745290.008005664898701650.0322359423354861
TAF7#6879411.43306940492395.85061525419808e-050.000969431074937638
TBP#690843.706770687096390.005296377814784350.0244323499380858
ZBTB7A#5134147.35190930787590.000342223540015990.00346701758616063



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.