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Coexpression cluster:C2647: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007503!4.65e-11!78;UBERON:0005256!5.56e-11!122;UBERON:0000926!1.17e-10!315;UBERON:0004120!1.17e-10!315;UBERON:0006603!1.17e-10!315;UBERON:0003104!8.55e-10!160;UBERON:0009142!8.55e-10!160;UBERON:0002049!1.53e-09!78;UBERON:0007798!1.53e-09!78;UBERON:0000468!2.79e-09!656;UBERON:0003914!3.51e-09!117;UBERON:0002329!8.95e-09!71;UBERON:0003059!8.95e-09!71;UBERON:0007282!8.95e-09!71;UBERON:0004290!8.95e-09!71;UBERON:0009618!8.95e-09!71;UBERON:0000055!9.11e-09!68;UBERON:0007524!9.80e-09!73;UBERON:0003077!1.07e-08!72;UBERON:0007285!1.07e-08!72;UBERON:0003102!3.56e-08!99;UBERON:0000486!5.00e-08!83;UBERON:0002199!6.28e-08!46;UBERON:0002416!6.28e-08!46;UBERON:0000467!6.64e-08!624;UBERON:0000480!8.90e-08!625;UBERON:0004872!2.66e-07!83;UBERON:0007500!3.01e-07!59;UBERON:0001981!3.01e-07!59;UBERON:0004537!3.01e-07!59;UBERON:0006965!3.01e-07!59;UBERON:0001134!6.19e-07!62;UBERON:0002036!6.19e-07!62;UBERON:0003082!6.19e-07!62;UBERON:0000490!7.54e-07!148;UBERON:0001009!8.10e-07!112;UBERON:0002385!8.59e-07!64;UBERON:0001015!8.59e-07!64;UBERON:0000383!8.59e-07!64
|ontology_enrichment_uberon=UBERON:0007503!4.65e-11!78;UBERON:0005256!5.56e-11!122;UBERON:0000926!1.17e-10!315;UBERON:0004120!1.17e-10!315;UBERON:0006603!1.17e-10!315;UBERON:0003104!8.55e-10!160;UBERON:0009142!8.55e-10!160;UBERON:0002049!1.53e-09!78;UBERON:0007798!1.53e-09!78;UBERON:0000468!2.79e-09!656;UBERON:0003914!3.51e-09!117;UBERON:0002329!8.95e-09!71;UBERON:0003059!8.95e-09!71;UBERON:0007282!8.95e-09!71;UBERON:0004290!8.95e-09!71;UBERON:0009618!8.95e-09!71;UBERON:0000055!9.11e-09!68;UBERON:0007524!9.80e-09!73;UBERON:0003077!1.07e-08!72;UBERON:0007285!1.07e-08!72;UBERON:0003102!3.56e-08!99;UBERON:0000486!5.00e-08!83;UBERON:0002199!6.28e-08!46;UBERON:0002416!6.28e-08!46;UBERON:0000467!6.64e-08!624;UBERON:0000480!8.90e-08!625;UBERON:0004872!2.66e-07!83;UBERON:0007500!3.01e-07!59;UBERON:0001981!3.01e-07!59;UBERON:0004537!3.01e-07!59;UBERON:0006965!3.01e-07!59;UBERON:0001134!6.19e-07!62;UBERON:0002036!6.19e-07!62;UBERON:0003082!6.19e-07!62;UBERON:0000490!7.54e-07!148;UBERON:0001009!8.10e-07!112;UBERON:0002385!8.59e-07!64;UBERON:0001015!8.59e-07!64;UBERON:0000383!8.59e-07!64
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}}
}}

Revision as of 15:38, 26 November 2012


Full id: C2647_Adipocyte_Preadipocyte_tenocyte_Osteoblast_basal_Mesenchymal_Olfactory



Phase1 CAGE Peaks

Hg19::chr22:43023683..43023702,-p@chr22:43023683..43023702
-
Hg19::chr22:43024232..43024253,-p5@CYB5R3
Hg19::chr22:43026936..43026976,-p4@CYB5R3
Hg19::chr22:43026982..43027003,-p10@CYB5R3


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
fibroblast2.39e-1476
somatic cell6.52e-14588
mesodermal cell1.21e-10121
somatic stem cell8.74e-09433
fat cell1.05e-0815
multi fate stem cell1.20e-08427
embryonic cell4.48e-08250
stem cell6.33e-08441
contractile cell7.65e-0859
animal cell1.12e-07679
eukaryotic cell1.12e-07679
smooth muscle cell2.21e-0743
smooth muscle myoblast2.21e-0743
muscle precursor cell2.48e-0758
myoblast2.48e-0758
multi-potent skeletal muscle stem cell2.48e-0758
Uber Anatomy
Ontology termp-valuen
epithelial vesicle4.65e-1178
trunk mesenchyme5.56e-11122
mesoderm1.17e-10315
mesoderm-derived structure1.17e-10315
presumptive mesoderm1.17e-10315
mesenchyme8.55e-10160
entire embryonic mesenchyme8.55e-10160
vasculature1.53e-0978
vascular system1.53e-0978
multi-cellular organism2.79e-09656
epithelial tube3.51e-09117
somite8.95e-0971
presomitic mesoderm8.95e-0971
presumptive segmental plate8.95e-0971
dermomyotome8.95e-0971
trunk paraxial mesoderm8.95e-0971
vessel9.11e-0968
dense mesenchyme tissue9.80e-0973
paraxial mesoderm1.07e-0872
presumptive paraxial mesoderm1.07e-0872
surface structure3.56e-0899
multilaminar epithelium5.00e-0883
integument6.28e-0846
integumental system6.28e-0846
anatomical system6.64e-08624
anatomical group8.90e-08625
splanchnic layer of lateral plate mesoderm2.66e-0783
epithelial tube open at both ends3.01e-0759
blood vessel3.01e-0759
blood vasculature3.01e-0759
vascular cord3.01e-0759
skeletal muscle tissue6.19e-0762
striated muscle tissue6.19e-0762
myotome6.19e-0762
unilaminar epithelium7.54e-07148
circulatory system8.10e-07112
muscle tissue8.59e-0764
musculature8.59e-0764
musculature of body8.59e-0764


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.

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