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Coexpression cluster:C2827

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Full id: C2827_Pericytes_Osteoblast_Smooth_astrocytoma_Fibroblast_transitionalcell_alveolar



Phase1 CAGE Peaks

Hg19::chr5:72743793..72743855,-p4@FOXD1
Hg19::chr5:72744445..72744466,-p2@FOXD1
Hg19::chr5:72744562..72744573,-p3@FOXD1
Hg19::chr5:72744594..72744609,-p1@FOXD1


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
organism subdivision6.76e-20264
surface structure2.05e-1599
epithelial vesicle2.71e-1478
trunk3.70e-14199
multilaminar epithelium1.41e-1383
integument1.89e-1346
integumental system1.89e-1346
dense mesenchyme tissue1.97e-1373
somite4.22e-1371
presomitic mesoderm4.22e-1371
presumptive segmental plate4.22e-1371
dermomyotome4.22e-1371
trunk paraxial mesoderm4.22e-1371
paraxial mesoderm5.12e-1372
presumptive paraxial mesoderm5.12e-1372
skin of body6.74e-1341
mesenchyme9.87e-13160
entire embryonic mesenchyme9.87e-13160
trunk mesenchyme4.14e-11122
skeletal muscle tissue2.26e-1062
striated muscle tissue2.26e-1062
myotome2.26e-1062
multi-tissue structure2.37e-10342
muscle tissue7.85e-1064
musculature7.85e-1064
musculature of body7.85e-1064
multi-cellular organism2.84e-08656
cell layer3.40e-08309
artery1.11e-0742
arterial blood vessel1.11e-0742
arterial system1.11e-0742
epithelium2.02e-07306
anatomical group2.33e-07625
head2.72e-0756
anatomical system3.32e-07624
systemic artery6.88e-0733
systemic arterial system6.88e-0733
blood vessel smooth muscle9.17e-0710
arterial system smooth muscle9.17e-0710
artery smooth muscle tissue9.17e-0710
aorta smooth muscle tissue9.17e-0710


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


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

TF#promotersEnrichmentp-valueq-value
E2F1#186944.907389214879320.001724022357361790.0106756297272921
MAX#414934.839416631755340.01315737137836840.0466427721185775
TCF7L2#693438.077632422353010.002978381685834620.0158695579249468
USF1#739134.771124457905970.01370465887188020.0483318993692271
USF2#739239.74414803880220.001718341848410070.010725669633403
ZNF263#1012748.221841637010680.0002187871180958320.00249780365400203



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.