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Coexpression cluster:C764: Difference between revisions

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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C764_Olfactory_Mesenchymal_Synoviocyte_Adipocyte_tenocyte_Chondrocyte_Multipotent
|full_id=C764_Olfactory_Mesenchymal_Synoviocyte_Adipocyte_tenocyte_Chondrocyte_Multipotent
|gostat_on_coexpression_clusters=GO:0030866!cortical actin cytoskeleton organization and biogenesis!0.0100965501000824!30846$GO:0030865!cortical cytoskeleton organization and biogenesis!0.0100965501000824!30846$GO:0019904!protein domain specific binding!0.0455146068003715!30846$GO:0010324!membrane invagination!0.0455146068003715!30846$GO:0006897!endocytosis!0.0455146068003715!30846$GO:0030036!actin cytoskeleton organization and biogenesis!0.0455146068003715!30846$GO:0030029!actin filament-based process!0.0455146068003715!30846$GO:0003924!GTPase activity!0.0455146068003715!30846$GO:0016044!membrane organization and biogenesis!0.0455146068003715!30846
|gostat_on_coexpression_clusters=GO:0030866!cortical actin cytoskeleton organization and biogenesis!0.0100965501000824!30846$GO:0030865!cortical cytoskeleton organization and biogenesis!0.0100965501000824!30846$GO:0019904!protein domain specific binding!0.0455146068003715!30846$GO:0010324!membrane invagination!0.0455146068003715!30846$GO:0006897!endocytosis!0.0455146068003715!30846$GO:0030036!actin cytoskeleton organization and biogenesis!0.0455146068003715!30846$GO:0030029!actin filament-based process!0.0455146068003715!30846$GO:0003924!GTPase activity!0.0455146068003715!30846$GO:0016044!membrane organization and biogenesis!0.0455146068003715!30846

Revision as of 18:28, 12 September 2012


Full id: C764_Olfactory_Mesenchymal_Synoviocyte_Adipocyte_tenocyte_Chondrocyte_Multipotent



Phase1 CAGE Peaks

Hg19::chr19:48244361..48244372,+p3@EHD2
Hg19::chr19:48244802..48244816,+p2@EHD2
Hg19::chr19:48244862..48244878,+p3@AK301380
Hg19::chr19:48244887..48244893,+p7@AK301380
Hg19::chr19:48244924..48244976,-p2@CU677000
Hg19::chr19:48245099..48245147,-p1@CU677000
Hg19::chr19:48245226..48245235,+p5@AK301380
Hg19::chr19:48245284..48245309,+p1@AK301380
Hg19::chr19:48245317..48245328,+p6@AK301380
Hg19::chr19:48245342..48245364,+p2@AK301380
Hg19::chr19:48245424..48245454,+p4@AK301380


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


GO IDGO nameFDR corrected p-value
GO:0030866cortical actin cytoskeleton organization and biogenesis0.0100965501000824
GO:0030865cortical cytoskeleton organization and biogenesis0.0100965501000824
GO:0019904protein domain specific binding0.0455146068003715
GO:0010324membrane invagination0.0455146068003715
GO:0006897endocytosis0.0455146068003715
GO:0030036actin cytoskeleton organization and biogenesis0.0455146068003715
GO:0030029actin filament-based process0.0455146068003715
GO:0003924GTPase activity0.0455146068003715
GO:0016044membrane organization and biogenesis0.0455146068003715



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
somite8.73e-1883
paraxial mesoderm8.73e-1883
presomitic mesoderm8.73e-1883
presumptive segmental plate8.73e-1883
trunk paraxial mesoderm8.73e-1883
presumptive paraxial mesoderm8.73e-1883
trunk mesenchyme1.01e-17143
organism subdivision1.96e-17365
multilaminar epithelium1.49e-1682
dermomyotome1.02e-1570
trunk1.80e-15216
vasculature4.63e-1579
vascular system4.63e-1579
surface structure6.76e-1595
splanchnic layer of lateral plate mesoderm8.17e-1584
skeletal muscle tissue5.79e-1461
striated muscle tissue5.79e-1461
myotome5.79e-1461
muscle tissue7.03e-1463
musculature7.03e-1463
musculature of body7.03e-1463
vessel4.42e-1369
multi-tissue structure4.69e-13347
blood vessel1.52e-1260
epithelial tube open at both ends1.52e-1260
blood vasculature1.52e-1260
vascular cord1.52e-1260
cell layer1.99e-12312
epithelium3.21e-12309
epithelial tube3.75e-12118
mesenchyme4.19e-12238
entire embryonic mesenchyme4.19e-12238
multi-cellular organism5.82e-12659
unilaminar epithelium9.76e-12138
anatomical cluster8.14e-11286
artery3.35e-1042
arterial blood vessel3.35e-1042
arterial system3.35e-1042
integument6.65e-1045
integumental system6.65e-1045
cardiovascular system8.47e-10110
circulatory system8.92e-10113
anatomical system2.59e-09625
anatomical group4.63e-09626
systemic artery4.42e-0833
systemic arterial system4.42e-0833
skin of body6.11e-0840
anatomical conduit6.52e-08241
adipose tissue8.84e-0714


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.