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Coexpression cluster:C4426

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Full id: C4426_Ewing_Preadipocyte_Fibroblast_basal_neurofibroma_Multipotent_Adipocyte



Phase1 CAGE Peaks

Hg19::chr4:77908859..77908883,+p5@SEPT11
Hg19::chr4:77908899..77908914,+p9@SEPT11
Hg19::chr4:77908937..77908956,+p11@SEPT11


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
skeletal muscle tissue2.57e-1861
striated muscle tissue2.57e-1861
myotome2.57e-1861
muscle tissue3.81e-1863
musculature3.81e-1863
musculature of body3.81e-1863
dermomyotome1.68e-1670
somite1.02e-1583
paraxial mesoderm1.02e-1583
presomitic mesoderm1.02e-1583
presumptive segmental plate1.02e-1583
trunk paraxial mesoderm1.02e-1583
presumptive paraxial mesoderm1.02e-1583
multilaminar epithelium1.27e-1382
splanchnic layer of lateral plate mesoderm1.00e-1184
trunk mesenchyme2.49e-10143
artery1.12e-0842
arterial blood vessel1.12e-0842
arterial system1.12e-0842
smooth muscle tissue1.13e-0815
systemic artery3.64e-0833
systemic arterial system3.64e-0833
unilaminar epithelium6.89e-08138
organism subdivision2.43e-07365
cardiovascular system3.16e-07110
trunk3.58e-07216
epithelial tube4.33e-07118
blood vessel smooth muscle6.14e-0710
arterial system smooth muscle6.14e-0710
artery smooth muscle tissue6.14e-0710
aorta smooth muscle tissue6.14e-0710
blood vessel7.81e-0760
epithelial tube open at both ends7.81e-0760
blood vasculature7.81e-0760
vascular cord7.81e-0760


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BATF#10538324.35780179230366.91705216281876e-050.00110157061731111
CTCF#1066435.360256373075030.0064925092527670.0280751562541294



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.