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Coexpression cluster:C4485

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Full id: C4485_Ciliary_mesothelioma_Fibroblast_neuroblastoma_leiomyoblastoma_Hair_Iris



Phase1 CAGE Peaks

Hg19::chr5:167182003..167182014,+p12@ODZ2
Hg19::chr5:167182034..167182046,+p8@ODZ2
Hg19::chr5:167182112..167182116,+p32@ODZ2


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
skin fibroblast7.22e-1623
fibroblast2.84e-1175
non-terminally differentiated cell1.86e-09180
ectodermal cell2.45e-0871
mesothelial cell2.51e-0819
oligodendrocyte2.84e-087
macroglial cell2.84e-087
astrocyte2.84e-087
oligodendrocyte precursor cell2.84e-087
hair follicle cell1.24e-074
Uber Anatomy
Ontology termp-valuen
skin of body1.78e-1640
integument7.44e-1445
integumental system7.44e-1445
ectoderm1.79e-12173
presumptive ectoderm1.79e-12173
head3.68e-11123
ectoderm-derived structure6.80e-11169
anterior region of body3.89e-10129
craniocervical region3.89e-10129
neurectoderm1.19e-0990
surface structure1.35e-0995
anterior segment of eyeball4.00e-0914
ectodermal placode1.28e-0829
atypical epithelium2.26e-084
neural plate5.75e-0886
presumptive neural plate5.75e-0886
hair follicle1.24e-074
hair follicle placode1.24e-074
organism subdivision1.39e-07365
pigment epithelium of eye1.75e-0711
camera-type eye2.38e-0719
simple eye2.38e-0719
ocular region2.38e-0719
optic cup2.38e-0719
eye primordium2.38e-0719
optic vesicle2.38e-0719
vasculature of head4.56e-0711
vasculature of organ4.56e-0711
sense organ6.50e-0723
eye7.32e-0720
Disease
Ontology termp-valuen
musculoskeletal system disease2.02e-095
myotonic disease2.02e-095
muscle tissue disease2.02e-095
myopathy2.02e-095
muscular disease2.02e-095
myotonic dystrophy2.02e-095


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
ZNF263#1012738.221841637010680.001799043925565870.0109915963813136



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.