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Coexpression cluster:C2099: Difference between revisions

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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C2099_Adipocyte_Osteoblast_Mesenchymal_Endothelial_Renal_Retinal_Preadipocyte
|full_id=C2099_Adipocyte_Osteoblast_Mesenchymal_Endothelial_Renal_Retinal_Preadipocyte
|gostat_on_coexpression_clusters=GO:0006817!phosphate transport!0.034862043251305!114902$GO:0015698!inorganic anion transport!0.034862043251305!114902$GO:0006820!anion transport!0.034862043251305!114902
|gostat_on_coexpression_clusters=GO:0006817!phosphate transport!0.034862043251305!114902$GO:0015698!inorganic anion transport!0.034862043251305!114902$GO:0006820!anion transport!0.034862043251305!114902

Revision as of 14:46, 12 September 2012


Full id: C2099_Adipocyte_Osteoblast_Mesenchymal_Endothelial_Renal_Retinal_Preadipocyte



Phase1 CAGE Peaks

Hg19::chr11:119211162..119211175,-p2@AB590791
Hg19::chr11:119211254..119211316,-p1@AB590791
Hg19::chr11:119211525..119211614,-p1@C1QTNF5
Hg19::chr11:119211627..119211642,-p4@C1QTNF5


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:0006817phosphate transport0.034862043251305
GO:0015698inorganic anion transport0.034862043251305
GO:0006820anion transport0.034862043251305



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
anatomical conduit5.37e-21241
epithelium1.71e-20309
anatomical cluster1.98e-20286
cell layer2.73e-20312
tube2.93e-19194
vasculature3.33e-1979
vascular system3.33e-1979
vessel4.52e-1969
splanchnic layer of lateral plate mesoderm2.68e-1884
epithelial tube1.07e-16118
blood vessel1.88e-1660
epithelial tube open at both ends1.88e-1660
blood vasculature1.88e-1660
vascular cord1.88e-1660
organism subdivision1.92e-15365
circulatory system8.88e-15113
cardiovascular system2.71e-14110
multi-cellular organism4.56e-13659
unilaminar epithelium5.71e-13138
adult organism1.34e-12115
endothelium6.39e-1218
blood vessel endothelium6.39e-1218
cardiovascular system endothelium6.39e-1218
multi-tissue structure1.24e-10347
squamous epithelium6.56e-1025
trunk mesenchyme8.31e-10143
muscle tissue1.12e-0963
musculature1.12e-0963
musculature of body1.12e-0963
anatomical system2.46e-09625
artery2.89e-0942
arterial blood vessel2.89e-0942
arterial system2.89e-0942
skeletal muscle tissue3.35e-0961
striated muscle tissue3.35e-0961
myotome3.35e-0961
simple squamous epithelium3.42e-0922
anatomical group3.86e-09626
neural plate6.58e-0986
presumptive neural plate6.58e-0986
somite2.54e-0883
paraxial mesoderm2.54e-0883
presomitic mesoderm2.54e-0883
presumptive segmental plate2.54e-0883
trunk paraxial mesoderm2.54e-0883
presumptive paraxial mesoderm2.54e-0883
dermomyotome3.59e-0870
neurectoderm1.04e-0790
neural tube1.26e-0757
neural rod1.26e-0757
future spinal cord1.26e-0757
neural keel1.26e-0757
systemic artery1.52e-0733
systemic arterial system1.52e-0733
trunk2.32e-07216
endothelial tube2.65e-079
arterial system endothelium2.65e-079
endothelium of artery2.65e-079
regional part of brain3.62e-0759
aorta5.95e-0721
aortic system5.95e-0721
multilaminar epithelium6.90e-0782


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.