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Coexpression cluster:C4362

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Full id: C4362_Multipotent_bone_basal_amniotic_Myoblast_Nucleus_Smooth



Phase1 CAGE Peaks

Hg19::chr4:114900167..114900191,-p4@ARSJ
Hg19::chr4:114900781..114900830,-p1@ARSJ
Hg19::chr4:114900831..114900844,-p3@ARSJ


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
vasculature1.18e-2879
vascular system1.18e-2879
somite1.92e-2683
paraxial mesoderm1.92e-2683
presomitic mesoderm1.92e-2683
presumptive segmental plate1.92e-2683
trunk paraxial mesoderm1.92e-2683
presumptive paraxial mesoderm1.92e-2683
vessel4.24e-2569
trunk mesenchyme6.08e-25143
blood vessel2.46e-2460
epithelial tube open at both ends2.46e-2460
blood vasculature2.46e-2460
vascular cord2.46e-2460
splanchnic layer of lateral plate mesoderm3.15e-2484
organism subdivision5.42e-24365
epithelial tube1.19e-22118
unilaminar epithelium1.31e-22138
dermomyotome8.51e-2270
cell layer9.55e-22312
epithelium1.14e-21309
multi-tissue structure1.15e-21347
artery1.22e-2142
arterial blood vessel1.22e-2142
arterial system1.22e-2142
multilaminar epithelium2.05e-2182
anatomical cluster8.18e-20286
cardiovascular system1.24e-19110
trunk1.43e-19216
skeletal muscle tissue1.66e-1961
striated muscle tissue1.66e-1961
myotome1.66e-1961
mesenchyme5.00e-19238
entire embryonic mesenchyme5.00e-19238
muscle tissue5.81e-1963
musculature5.81e-1963
musculature of body5.81e-1963
circulatory system1.42e-18113
multi-cellular organism1.19e-17659
systemic artery4.68e-1733
systemic arterial system4.68e-1733
anatomical conduit1.17e-16241
anatomical system3.77e-16625
surface structure6.12e-1695
anatomical group7.47e-16626
embryonic structure8.65e-11605
developing anatomical structure8.65e-11605
tube9.18e-11194
germ layer1.23e-10604
embryonic tissue1.23e-10604
presumptive structure1.23e-10604
epiblast (generic)1.23e-10604
aorta1.38e-1021
aortic system1.38e-1021
embryo6.38e-10612
mesoderm5.30e-08448
mesoderm-derived structure5.30e-08448
presumptive mesoderm5.30e-08448
skin of body7.70e-0840
integument9.06e-0845
integumental system9.06e-0845
subdivision of head1.53e-0748
simple squamous epithelium4.63e-0722
endothelium5.65e-0718
blood vessel endothelium5.65e-0718
cardiovascular system endothelium5.65e-0718


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#1066435.360256373075030.0064925092527670.0280612139484247
NR3C1#290829.982015554115360.01278474365547170.0460645084742224



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.