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|full_id=C3323_Smooth_Fibroblast_leiomyoma_teratocarcinoma_pagetoid_Chondrocyte_mesenchymal
|full_id=C3323_Smooth_Fibroblast_leiomyoma_teratocarcinoma_pagetoid_Chondrocyte_mesenchymal
|id=C3323
|id=C3323
|ontology_enrichment_celltype=CL:0000055!3.58e-46!180;CL:0000057!3.25e-21!75;CL:0000183!2.36e-17!59;CL:0000680!7.95e-16!57;CL:0000056!7.95e-16!57;CL:0000355!7.95e-16!57;CL:0000187!1.59e-15!54;CL:0000393!4.74e-14!60;CL:0000211!4.74e-14!60;CL:0000192!7.22e-12!42;CL:0000514!7.22e-12!42;CL:0002321!6.30e-11!248;CL:0002620!9.78e-11!23;CL:0000220!1.10e-10!246;CL:0000222!2.82e-10!119;CL:0000359!4.18e-08!32;CL:0000499!1.19e-07!27;CL:0000327!8.04e-07!14
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000914!2.65e-17!83;UBERON:0002329!2.65e-17!83;UBERON:0003077!2.65e-17!83;UBERON:0003059!2.65e-17!83;UBERON:0007282!2.65e-17!83;UBERON:0009618!2.65e-17!83;UBERON:0007285!2.65e-17!83;UBERON:0000486!1.08e-16!82;UBERON:0004290!2.37e-16!70;UBERON:0001134!8.88e-16!61;UBERON:0002036!8.88e-16!61;UBERON:0003082!8.88e-16!61;UBERON:0005256!2.35e-15!143;UBERON:0002385!2.41e-15!63;UBERON:0001015!2.41e-15!63;UBERON:0000383!2.41e-15!63;UBERON:0000475!9.75e-14!365;UBERON:0000119!1.37e-12!312;UBERON:0000483!7.42e-12!309;UBERON:0000481!4.92e-11!347;UBERON:0002100!7.76e-11!216;UBERON:0004872!7.79e-11!84;UBERON:0000490!3.52e-10!138;UBERON:0003914!4.30e-10!118;UBERON:0002049!5.40e-10!79;UBERON:0007798!5.40e-10!79;UBERON:0000468!1.10e-09!659;UBERON:0003104!6.22e-09!238;UBERON:0009142!6.22e-09!238;UBERON:0001981!2.84e-08!60;UBERON:0007500!2.84e-08!60;UBERON:0004537!2.84e-08!60;UBERON:0006965!2.84e-08!60;UBERON:0001637!3.54e-08!42;UBERON:0003509!3.54e-08!42;UBERON:0004572!3.54e-08!42;UBERON:0000055!9.46e-08!69;UBERON:0002199!2.51e-07!45;UBERON:0002416!2.51e-07!45;UBERON:0003102!3.06e-07!95;UBERON:0003103!4.32e-07!69;UBERON:0004573!4.37e-07!33;UBERON:0004571!4.37e-07!33;UBERON:0002097!7.44e-07!40;UBERON:0000467!8.56e-07!625
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Revision as of 14:35, 21 May 2012


Full id: C3323_Smooth_Fibroblast_leiomyoma_teratocarcinoma_pagetoid_Chondrocyte_mesenchymal



Phase1 CAGE Peaks

Hg19::chr12:6937349..6937370,+p3@LEPREL2
Hg19::chr12:6937377..6937394,+p2@LEPREL2
Hg19::chr12:6937402..6937414,+p4@LEPREL2


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
somite2.65e-1783
paraxial mesoderm2.65e-1783
presomitic mesoderm2.65e-1783
presumptive segmental plate2.65e-1783
trunk paraxial mesoderm2.65e-1783
presumptive paraxial mesoderm2.65e-1783
multilaminar epithelium1.08e-1682
dermomyotome2.37e-1670
skeletal muscle tissue8.88e-1661
striated muscle tissue8.88e-1661
myotome8.88e-1661
trunk mesenchyme2.35e-15143
muscle tissue2.41e-1563
musculature2.41e-1563
musculature of body2.41e-1563
organism subdivision9.75e-14365
cell layer1.37e-12312
epithelium7.42e-12309
multi-tissue structure4.92e-11347
trunk7.76e-11216
splanchnic layer of lateral plate mesoderm7.79e-1184
unilaminar epithelium3.52e-10138
epithelial tube4.30e-10118
vasculature5.40e-1079
vascular system5.40e-1079
multi-cellular organism1.10e-09659
mesenchyme6.22e-09238
entire embryonic mesenchyme6.22e-09238
blood vessel2.84e-0860
epithelial tube open at both ends2.84e-0860
blood vasculature2.84e-0860
vascular cord2.84e-0860
artery3.54e-0842
arterial blood vessel3.54e-0842
arterial system3.54e-0842
vessel9.46e-0869
integument2.51e-0745
integumental system2.51e-0745
surface structure3.06e-0795
compound organ4.32e-0769
systemic artery4.37e-0733
systemic arterial system4.37e-0733
skin of body7.44e-0740
anatomical system8.56e-07625


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.