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Coexpression cluster:C4676: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0004535!2.78e-23!110;UBERON:0001009!6.93e-22!113;UBERON:0002049!3.38e-19!79;UBERON:0007798!3.38e-19!79;UBERON:0001637!9.38e-17!42;UBERON:0003509!9.38e-17!42;UBERON:0004572!9.38e-17!42;UBERON:0000055!3.41e-15!69;UBERON:0001981!8.85e-15!60;UBERON:0007500!8.85e-15!60;UBERON:0004537!8.85e-15!60;UBERON:0006965!8.85e-15!60;UBERON:0004573!8.83e-14!33;UBERON:0004571!8.83e-14!33;UBERON:0004872!2.09e-13!84;UBERON:0003081!2.24e-11!216;UBERON:0000947!2.05e-09!21;UBERON:0010191!2.05e-09!21;UBERON:0000914!1.36e-08!83;UBERON:0002329!1.36e-08!83;UBERON:0003077!1.36e-08!83;UBERON:0003059!1.36e-08!83;UBERON:0007282!1.36e-08!83;UBERON:0009618!1.36e-08!83;UBERON:0007285!1.36e-08!83;UBERON:0001986!3.10e-08!18;UBERON:0004638!3.10e-08!18;UBERON:0004852!3.10e-08!18;UBERON:0000926!4.13e-08!448;UBERON:0004120!4.13e-08!448;UBERON:0006603!4.13e-08!448;UBERON:0000467!9.61e-08!625;UBERON:0000480!1.52e-07!626;UBERON:0002204!2.68e-07!167;UBERON:0000487!6.08e-07!22;UBERON:0004290!8.58e-07!70
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}}
}}

Revision as of 20:13, 8 August 2012


Full id: C4676_giant_Lens_embryonic_Preadipocyte_Iris_Fibroblast_blood



Phase1 CAGE Peaks

Hg19::chr7:23387355..23387366,-p8@IGF2BP3
Hg19::chr7:23387369..23387401,-p4@IGF2BP3
Hg19::chr7:23387403..23387438,-p3@IGF2BP3


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
cardiovascular system2.78e-23110
circulatory system6.93e-22113
vasculature3.38e-1979
vascular system3.38e-1979
artery9.38e-1742
arterial blood vessel9.38e-1742
arterial system9.38e-1742
vessel3.41e-1569
blood vessel8.85e-1560
epithelial tube open at both ends8.85e-1560
blood vasculature8.85e-1560
vascular cord8.85e-1560
systemic artery8.83e-1433
systemic arterial system8.83e-1433
splanchnic layer of lateral plate mesoderm2.09e-1384
lateral plate mesoderm2.24e-11216
aorta2.05e-0921
aortic system2.05e-0921
somite1.36e-0883
paraxial mesoderm1.36e-0883
presomitic mesoderm1.36e-0883
presumptive segmental plate1.36e-0883
trunk paraxial mesoderm1.36e-0883
presumptive paraxial mesoderm1.36e-0883
endothelium3.10e-0818
blood vessel endothelium3.10e-0818
cardiovascular system endothelium3.10e-0818
mesoderm4.13e-08448
mesoderm-derived structure4.13e-08448
presumptive mesoderm4.13e-08448
anatomical system9.61e-08625
anatomical group1.52e-07626
musculoskeletal system2.68e-07167
simple squamous epithelium6.08e-0722
dermomyotome8.58e-0770


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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