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|full_id=C3454_Gingival_Mallassezderived_Preadipocyte_Urothelial_mesenchymal_pleomorphic_Ciliary
|full_id=C3454_Gingival_Mallassezderived_Preadipocyte_Urothelial_mesenchymal_pleomorphic_Ciliary
|id=C3454
|id=C3454
|ontology_enrichment_celltype=CL:0002371!4.24e-12!591;CL:0000144!4.33e-11!625;CL:0000548!9.62e-10!679;CL:0000004!9.62e-10!679;CL:0000255!9.62e-10!679;CL:0000012!2.33e-09!682;CL:0000220!9.60e-09!246;CL:0000055!9.84e-09!180;CL:0002321!1.95e-08!248;CL:0000057!2.57e-07!75;CL:0000359!3.79e-07!32
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000467!2.17e-10!625;UBERON:0001637!2.42e-10!42;UBERON:0003509!2.42e-10!42;UBERON:0004572!2.42e-10!42;UBERON:0000480!2.93e-10!626;UBERON:0000468!1.06e-08!659;UBERON:0001444!1.22e-08!48;UBERON:0000914!1.48e-08!83;UBERON:0002329!1.48e-08!83;UBERON:0003077!1.48e-08!83;UBERON:0003059!1.48e-08!83;UBERON:0007282!1.48e-08!83;UBERON:0009618!1.48e-08!83;UBERON:0007285!1.48e-08!83;UBERON:0001981!1.61e-08!60;UBERON:0007500!1.61e-08!60;UBERON:0004537!1.61e-08!60;UBERON:0006965!1.61e-08!60;UBERON:0004573!4.19e-08!33;UBERON:0004571!4.19e-08!33;UBERON:0000923!6.58e-08!604;UBERON:0005291!6.58e-08!604;UBERON:0006598!6.58e-08!604;UBERON:0002532!6.58e-08!604;UBERON:0002050!8.54e-08!605;UBERON:0005423!8.54e-08!605;UBERON:0000486!1.63e-07!82;UBERON:0003914!1.90e-07!118;UBERON:0002049!1.99e-07!79;UBERON:0007798!1.99e-07!79;UBERON:0000922!2.86e-07!612;UBERON:0000926!3.24e-07!448;UBERON:0004120!3.24e-07!448;UBERON:0006603!3.24e-07!448;UBERON:0003102!6.86e-07!95;UBERON:0000475!9.67e-07!365;UBERON:0007625!9.82e-07!11
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Revision as of 14:36, 21 May 2012


Full id: C3454_Gingival_Mallassezderived_Preadipocyte_Urothelial_mesenchymal_pleomorphic_Ciliary



Phase1 CAGE Peaks

Hg19::chr14:75081582..75081595,-p@chr14:75081582..75081595
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Hg19::chr14:75081642..75081666,-p@chr14:75081642..75081666
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Hg19::chr14:75081670..75081682,-p@chr14:75081670..75081682
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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
somatic cell4.24e-12591
animal cell9.62e-10679
eukaryotic cell9.62e-10679
non-terminally differentiated cell9.84e-09180
embryonic cell1.95e-08248
fibroblast2.57e-0775
vascular associated smooth muscle cell3.79e-0732
Uber Anatomy
Ontology termp-valuen
anatomical system2.17e-10625
artery2.42e-1042
arterial blood vessel2.42e-1042
arterial system2.42e-1042
anatomical group2.93e-10626
multi-cellular organism1.06e-08659
subdivision of head1.22e-0848
somite1.48e-0883
paraxial mesoderm1.48e-0883
presomitic mesoderm1.48e-0883
presumptive segmental plate1.48e-0883
trunk paraxial mesoderm1.48e-0883
presumptive paraxial mesoderm1.48e-0883
blood vessel1.61e-0860
epithelial tube open at both ends1.61e-0860
blood vasculature1.61e-0860
vascular cord1.61e-0860
systemic artery4.19e-0833
systemic arterial system4.19e-0833
germ layer6.58e-08604
embryonic tissue6.58e-08604
presumptive structure6.58e-08604
epiblast (generic)6.58e-08604
embryonic structure8.54e-08605
developing anatomical structure8.54e-08605
multilaminar epithelium1.63e-0782
epithelial tube1.90e-07118
vasculature1.99e-0779
vascular system1.99e-0779
embryo2.86e-07612
mesoderm3.24e-07448
mesoderm-derived structure3.24e-07448
presumptive mesoderm3.24e-07448
surface structure6.86e-0795
organism subdivision9.67e-07365
pigment epithelium of eye9.82e-0711


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.