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Coexpression cluster:C934

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Full id: C934_basal_Preadipocyte_Adipocyte_Fibroblast_Mesenchymal_spindle_Myoblast



Phase1 CAGE Peaks

Hg19::chr1:86043705..86043730,-p11@DDAH1
Hg19::chr1:86043743..86043752,-p25@DDAH1
Hg19::chr1:86043758..86043791,-p5@DDAH1
Hg19::chr1:86043792..86043803,-p18@DDAH1
Hg19::chr1:86043808..86043860,-p2@DDAH1
Hg19::chr1:86043864..86043895,-p3@DDAH1
Hg19::chr1:86043921..86043937,-p6@DDAH1
Hg19::chr1:86043992..86044008,-p7@DDAH1
Hg19::chr1:86044028..86044041,-p10@DDAH1


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
dense mesenchyme tissue4.90e-2173
paraxial mesoderm1.93e-2072
presumptive paraxial mesoderm1.93e-2072
somite2.35e-2071
presomitic mesoderm2.35e-2071
presumptive segmental plate2.35e-2071
dermomyotome2.35e-2071
trunk paraxial mesoderm2.35e-2071
epithelial vesicle7.25e-1978
muscle tissue1.89e-1764
musculature1.89e-1764
musculature of body1.89e-1764
skeletal muscle tissue2.82e-1762
striated muscle tissue2.82e-1762
myotome2.82e-1762
multilaminar epithelium3.91e-1783
trunk mesenchyme1.43e-13122
mesenchyme7.33e-13160
entire embryonic mesenchyme7.33e-13160
splanchnic layer of lateral plate mesoderm3.76e-1283
vasculature9.00e-1278
vascular system9.00e-1278
unilaminar epithelium1.42e-11148
artery1.88e-1142
arterial blood vessel1.88e-1142
arterial system1.88e-1142
epithelial tube open at both ends3.73e-1059
blood vessel3.73e-1059
blood vasculature3.73e-1059
vascular cord3.73e-1059
integument1.13e-0946
integumental system1.13e-0946
cardiovascular system3.56e-09109
vessel3.93e-0968
systemic artery4.04e-0933
systemic arterial system4.04e-0933
trunk4.60e-09199
organism subdivision1.09e-08264
epithelial tube1.65e-08117
circulatory system2.33e-08112
skin of body4.66e-0841
surface structure6.14e-0899
mesoderm1.71e-07315
mesoderm-derived structure1.71e-07315
presumptive mesoderm1.71e-07315
cell layer3.51e-07309
smooth muscle tissue4.87e-0715
aorta5.44e-0721
aortic system5.44e-0721
multi-tissue structure9.00e-07342
organ component layer9.99e-0766


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
CTCF#1066474.169088290169470.0001982812163300480.00238163219692856
MAX#414996.452555509007125.15172852378632e-083.28876146268777e-06
POLR2A#543092.147453176558070.001029412892608020.00728837726873361



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.