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Coexpression cluster:C2099: Difference between revisions

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}}
}}

Revision as of 15:17, 26 November 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
epithelium8.48e-20306
cell layer1.55e-19309
anatomical conduit4.36e-19240
vasculature1.02e-1878
vascular system1.02e-1878
vessel2.09e-1868
anatomical cluster1.03e-17373
splanchnic layer of lateral plate mesoderm2.37e-1783
tube2.45e-17192
epithelial tube open at both ends6.15e-1659
blood vessel6.15e-1659
blood vasculature6.15e-1659
vascular cord6.15e-1659
epithelial tube6.57e-15117
circulatory system6.93e-14112
cardiovascular system1.50e-13109
multi-cellular organism2.14e-13656
multi-tissue structure1.96e-12342
adult organism2.92e-12114
unilaminar epithelium8.97e-12148
blood vessel endothelium1.02e-1118
endothelium1.02e-1118
cardiovascular system endothelium1.02e-1118
structure with developmental contribution from neural crest8.37e-11132
muscle tissue2.75e-1064
musculature2.75e-1064
musculature of body2.75e-1064
epithelial vesicle7.24e-1078
skeletal muscle tissue7.67e-1062
striated muscle tissue7.67e-1062
myotome7.67e-1062
squamous epithelium1.22e-0925
anatomical system2.06e-09624
mesenchyme2.56e-09160
entire embryonic mesenchyme2.56e-09160
anatomical group3.18e-09625
artery3.96e-0942
arterial blood vessel3.96e-0942
arterial system3.96e-0942
trunk mesenchyme4.79e-09122
simple squamous epithelium6.45e-0922
dense mesenchyme tissue8.12e-0973
neural plate1.04e-0882
presumptive neural plate1.04e-0882
paraxial mesoderm1.24e-0872
presumptive paraxial mesoderm1.24e-0872
somite1.81e-0871
presomitic mesoderm1.81e-0871
presumptive segmental plate1.81e-0871
dermomyotome1.81e-0871
trunk paraxial mesoderm1.81e-0871
neurectoderm1.44e-0786
systemic artery1.54e-0733
systemic arterial system1.54e-0733
endothelial tube2.60e-079
arterial system endothelium2.60e-079
endothelium of artery2.60e-079
multilaminar epithelium2.84e-0783
neural tube3.99e-0756
neural rod3.99e-0756
future spinal cord3.99e-0756
neural keel3.99e-0756
aorta6.97e-0721
aortic system6.97e-0721
organism subdivision7.66e-07264


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.

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