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Coexpression cluster:C3270

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Full id: C3270_giant_testicular_gastric_ductal_Fibroblast_anaplastic_basal



Phase1 CAGE Peaks

Hg19::chr12:26111591..26111662,+p1@RASSF8
Hg19::chr12:26111665..26111684,+p5@RASSF8
Hg19::chr12:26111706..26111717,+p4@RASSF8


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 cell3.71e-22180
fibroblast9.42e-1475
Uber Anatomy
Ontology termp-valuen
organism subdivision2.33e-19365
multi-cellular organism6.19e-19659
anatomical group2.44e-16626
anatomical system3.17e-16625
anatomical cluster3.71e-16286
multi-tissue structure3.90e-16347
anatomical conduit1.80e-12241
epithelium2.17e-12309
cell layer2.38e-12312
embryo2.49e-11612
embryonic structure1.60e-10605
developing anatomical structure1.60e-10605
organ1.94e-10511
tube2.14e-10194
ectoderm-derived structure2.73e-10169
germ layer3.59e-10604
embryonic tissue3.59e-10604
presumptive structure3.59e-10604
epiblast (generic)3.59e-10604
somite8.54e-1083
paraxial mesoderm8.54e-1083
presomitic mesoderm8.54e-1083
presumptive segmental plate8.54e-1083
trunk paraxial mesoderm8.54e-1083
presumptive paraxial mesoderm8.54e-1083
head1.04e-09123
ectoderm2.58e-09173
presumptive ectoderm2.58e-09173
neural plate3.12e-0986
presumptive neural plate3.12e-0986
splanchnic layer of lateral plate mesoderm8.82e-0984
vasculature1.15e-0879
vascular system1.15e-0879
anterior region of body1.81e-08129
craniocervical region1.81e-08129
regional part of nervous system3.04e-0894
nervous system3.04e-0894
body cavity or lining3.62e-0849
trunk4.11e-08216
dermomyotome4.81e-0870
neurectoderm6.16e-0890
central nervous system7.10e-0882
organ part1.29e-07219
body cavity1.59e-0746
primordium2.55e-07168
adult organism3.92e-07115
vessel5.59e-0769
heart5.88e-0724
primitive heart tube5.88e-0724
primary heart field5.88e-0724
anterior lateral plate mesoderm5.88e-0724
heart tube5.88e-0724
heart primordium5.88e-0724
cardiac mesoderm5.88e-0724
cardiogenic plate5.88e-0724
heart rudiment5.88e-0724
primary circulatory organ6.07e-0727
systemic artery6.24e-0733
systemic arterial system6.24e-0733
brain6.35e-0769
future brain6.35e-0769
multilaminar epithelium7.20e-0782


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


No analysis results for this cluster

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.