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Coexpression cluster:C517: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002385!2.23e-17!63;UBERON:0001015!2.23e-17!63;UBERON:0000383!2.23e-17!63;UBERON:0001134!1.38e-16!61;UBERON:0002036!1.38e-16!61;UBERON:0003082!1.38e-16!61;UBERON:0004872!1.01e-15!84;UBERON:0004290!1.16e-14!70;UBERON:0000914!4.36e-14!83;UBERON:0002329!4.36e-14!83;UBERON:0003077!4.36e-14!83;UBERON:0003059!4.36e-14!83;UBERON:0007282!4.36e-14!83;UBERON:0009618!4.36e-14!83;UBERON:0007285!4.36e-14!83;UBERON:0007100!2.19e-13!27;UBERON:0000948!2.56e-12!24;UBERON:0005498!2.56e-12!24;UBERON:0004140!2.56e-12!24;UBERON:0009881!2.56e-12!24;UBERON:0004141!2.56e-12!24;UBERON:0003084!2.56e-12!24;UBERON:0007005!2.56e-12!24;UBERON:0004139!2.56e-12!24;UBERON:0004291!2.56e-12!24;UBERON:0001637!4.40e-12!42;UBERON:0003509!4.40e-12!42;UBERON:0004572!4.40e-12!42;UBERON:0001009!4.90e-12!113;UBERON:0002049!8.95e-12!79;UBERON:0007798!8.95e-12!79;UBERON:0000475!1.82e-11!365;UBERON:0000486!3.31e-11!82;UBERON:0004535!3.74e-11!110;UBERON:0001981!7.40e-11!60;UBERON:0007500!7.40e-11!60;UBERON:0004537!7.40e-11!60;UBERON:0006965!7.40e-11!60;UBERON:0005256!1.62e-10!143;UBERON:0004573!2.97e-10!33;UBERON:0004571!2.97e-10!33;UBERON:0002100!2.98e-10!216;UBERON:0000481!3.99e-10!347;UBERON:0003914!1.11e-09!118;UBERON:0000055!3.26e-09!69;UBERON:0000490!1.79e-08!138;UBERON:0000119!2.06e-08!312;UBERON:0000477!3.41e-08!286;UBERON:0000483!5.03e-08!309;UBERON:0004111!2.20e-07!241;UBERON:0000468!2.26e-07!659;UBERON:0000025!2.74e-07!194;UBERON:0004458!4.38e-07!49;UBERON:0007023!5.37e-07!115
|ontology_enrichment_uberon=UBERON:0002385!2.23e-17!63;UBERON:0001015!2.23e-17!63;UBERON:0000383!2.23e-17!63;UBERON:0001134!1.38e-16!61;UBERON:0002036!1.38e-16!61;UBERON:0003082!1.38e-16!61;UBERON:0004872!1.01e-15!84;UBERON:0004290!1.16e-14!70;UBERON:0000914!4.36e-14!83;UBERON:0002329!4.36e-14!83;UBERON:0003077!4.36e-14!83;UBERON:0003059!4.36e-14!83;UBERON:0007282!4.36e-14!83;UBERON:0009618!4.36e-14!83;UBERON:0007285!4.36e-14!83;UBERON:0007100!2.19e-13!27;UBERON:0000948!2.56e-12!24;UBERON:0005498!2.56e-12!24;UBERON:0004140!2.56e-12!24;UBERON:0009881!2.56e-12!24;UBERON:0004141!2.56e-12!24;UBERON:0003084!2.56e-12!24;UBERON:0007005!2.56e-12!24;UBERON:0004139!2.56e-12!24;UBERON:0004291!2.56e-12!24;UBERON:0001637!4.40e-12!42;UBERON:0003509!4.40e-12!42;UBERON:0004572!4.40e-12!42;UBERON:0001009!4.90e-12!113;UBERON:0002049!8.95e-12!79;UBERON:0007798!8.95e-12!79;UBERON:0000475!1.82e-11!365;UBERON:0000486!3.31e-11!82;UBERON:0004535!3.74e-11!110;UBERON:0001981!7.40e-11!60;UBERON:0007500!7.40e-11!60;UBERON:0004537!7.40e-11!60;UBERON:0006965!7.40e-11!60;UBERON:0005256!1.62e-10!143;UBERON:0004573!2.97e-10!33;UBERON:0004571!2.97e-10!33;UBERON:0002100!2.98e-10!216;UBERON:0000481!3.99e-10!347;UBERON:0003914!1.11e-09!118;UBERON:0000055!3.26e-09!69;UBERON:0000490!1.79e-08!138;UBERON:0000119!2.06e-08!312;UBERON:0000477!3.41e-08!286;UBERON:0000483!5.03e-08!309;UBERON:0004111!2.20e-07!241;UBERON:0000468!2.26e-07!659;UBERON:0000025!2.74e-07!194;UBERON:0004458!4.38e-07!49;UBERON:0007023!5.37e-07!115
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}}
}}

Revision as of 20:28, 8 August 2012


Full id: C517_Mesothelial_Synoviocyte_mesothelioma_Fibroblast_Smooth_Preadipocyte_tenocyte



Phase1 CAGE Peaks

Hg19::chr20:48121333..48121349,-p@chr20:48121333..48121349
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Hg19::chr20:48121824..48121844,-p@chr20:48121824..48121844
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Hg19::chr20:48123976..48123992,-p@chr20:48123976..48123992
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Hg19::chr20:48124063..48124075,-p@chr20:48124063..48124075
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Hg19::chr20:48124130..48124143,-p@chr20:48124130..48124143
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Hg19::chr20:48124348..48124365,-p@chr20:48124348..48124365
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Hg19::chr20:48127605..48127622,-p@chr20:48127605..48127622
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Hg19::chr20:48129753..48129781,-p@chr20:48129753..48129781
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Hg19::chr20:48130918..48130935,-p@chr20:48130918..48130935
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Hg19::chr20:48140671..48140693,-p@chr20:48140671..48140693
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Hg19::chr20:48140767..48140776,-p@chr20:48140767..48140776
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Hg19::chr20:48164416..48164441,-p@chr20:48164416..48164441
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Hg19::chr20:48164465..48164477,-p@chr20:48164465..48164477
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Hg19::chr20:48164479..48164499,-p@chr20:48164479..48164499
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Hg19::chr20:48164533..48164548,-p@chr20:48164533..48164548
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Hg19::chr20:48184612..48184630,-p2@PTGIS
Hg19::chr20:48184638..48184694,-p1@PTGIS
Hg19::chr20:48184831..48184858,-p4@PTGIS


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
muscle tissue2.23e-1763
musculature2.23e-1763
musculature of body2.23e-1763
skeletal muscle tissue1.38e-1661
striated muscle tissue1.38e-1661
myotome1.38e-1661
splanchnic layer of lateral plate mesoderm1.01e-1584
dermomyotome1.16e-1470
somite4.36e-1483
paraxial mesoderm4.36e-1483
presomitic mesoderm4.36e-1483
presumptive segmental plate4.36e-1483
trunk paraxial mesoderm4.36e-1483
presumptive paraxial mesoderm4.36e-1483
primary circulatory organ2.19e-1327
heart2.56e-1224
primitive heart tube2.56e-1224
primary heart field2.56e-1224
anterior lateral plate mesoderm2.56e-1224
heart tube2.56e-1224
heart primordium2.56e-1224
cardiac mesoderm2.56e-1224
cardiogenic plate2.56e-1224
heart rudiment2.56e-1224
artery4.40e-1242
arterial blood vessel4.40e-1242
arterial system4.40e-1242
circulatory system4.90e-12113
vasculature8.95e-1279
vascular system8.95e-1279
organism subdivision1.82e-11365
multilaminar epithelium3.31e-1182
cardiovascular system3.74e-11110
blood vessel7.40e-1160
epithelial tube open at both ends7.40e-1160
blood vasculature7.40e-1160
vascular cord7.40e-1160
trunk mesenchyme1.62e-10143
systemic artery2.97e-1033
systemic arterial system2.97e-1033
trunk2.98e-10216
multi-tissue structure3.99e-10347
epithelial tube1.11e-09118
vessel3.26e-0969
unilaminar epithelium1.79e-08138
cell layer2.06e-08312
anatomical cluster3.41e-08286
epithelium5.03e-08309
anatomical conduit2.20e-07241
multi-cellular organism2.26e-07659
tube2.74e-07194
body cavity or lining4.38e-0749
adult organism5.37e-07115


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)

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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.