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Coexpression cluster:C4113

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Full id: C4113_Sertoli_Fibroblast_Cardiac_Mesenchymal_Hair_Smooth_liver



Phase1 CAGE Peaks

Hg19::chr2:102720988..102721019,+p8@IL1R1
Hg19::chr2:102721025..102721051,+p3@IL1R1
Hg19::chr2:102721057..102721110,+p2@IL1R1


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
somite4.24e-1783
paraxial mesoderm4.24e-1783
presomitic mesoderm4.24e-1783
presumptive segmental plate4.24e-1783
trunk paraxial mesoderm4.24e-1783
presumptive paraxial mesoderm4.24e-1783
dermomyotome3.94e-1670
muscle tissue4.78e-1463
musculature4.78e-1463
musculature of body4.78e-1463
skeletal muscle tissue8.17e-1461
striated muscle tissue8.17e-1461
myotome8.17e-1461
trunk mesenchyme5.33e-12143
multi-cellular organism7.36e-12659
multilaminar epithelium8.21e-1282
musculoskeletal system9.95e-12167
tissue2.60e-11787
splanchnic layer of lateral plate mesoderm3.44e-1184
mesoderm3.71e-11448
mesoderm-derived structure3.71e-11448
presumptive mesoderm3.71e-11448
primary circulatory organ4.92e-1127
heart5.39e-1124
primitive heart tube5.39e-1124
primary heart field5.39e-1124
anterior lateral plate mesoderm5.39e-1124
heart tube5.39e-1124
heart primordium5.39e-1124
cardiac mesoderm5.39e-1124
cardiogenic plate5.39e-1124
heart rudiment5.39e-1124
anatomical system1.04e-10625
anatomical group1.73e-10626
multi-tissue structure1.09e-09347
organ1.15e-08511
organism subdivision2.03e-08365
embryonic structure2.39e-08605
developing anatomical structure2.39e-08605
germ layer4.26e-08604
embryonic tissue4.26e-08604
presumptive structure4.26e-08604
epiblast (generic)4.26e-08604
trunk5.92e-08216
embryo9.16e-08612
anatomical cluster9.73e-08286
mesenchyme2.98e-07238
entire embryonic mesenchyme2.98e-07238
epithelial tube3.99e-07118
artery6.84e-0742
arterial blood vessel6.84e-0742
arterial system6.84e-0742
systemic artery7.87e-0733
systemic arterial system7.87e-0733
unilaminar epithelium9.54e-07138


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
BATF#10538324.35780179230366.91705216281876e-050.00110022846608685
BCL11A#53335328.36945510360714.37778126761649e-050.000778364143358186
EBF1#187938.9064668465690.00141523283560980.00916680117329771
FOS#235338.99795530889440.001372499272417130.00898980567651129
NFKB1#479035.488063424193840.006049381815655430.0270054023272168
PAX5#507936.669565531177830.003370290999677260.0173206289595165
PBX3#5090321.91451268674419.49854535978121e-050.00136886791614487
TCF12#6938310.63446490218640.0008313523990202070.00630175738142483



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.