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Coexpression cluster:C1253

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Full id: C1253_Fibroblast_Smooth_Cardiac_Mesenchymal_Adipocyte_mesenchymal_Wilms



Phase1 CAGE Peaks

Hg19::chr1:182992405..182992422,+p5@LAMC1
Hg19::chr1:182992442..182992453,+p9@LAMC1
Hg19::chr1:182992521..182992541,+p7@LAMC1
Hg19::chr1:182992545..182992630,+p1@LAMC1
Hg19::chr1:182992639..182992662,+p4@LAMC1
Hg19::chr1:182992682..182992705,+p3@LAMC1
Hg19::chr1:182992728..182992739,+p8@LAMC1


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
splanchnic layer of lateral plate mesoderm1.47e-2284
vasculature1.72e-2179
vascular system1.72e-2179
dermomyotome2.04e-2070
somite2.51e-2083
paraxial mesoderm2.51e-2083
presomitic mesoderm2.51e-2083
presumptive segmental plate2.51e-2083
trunk paraxial mesoderm2.51e-2083
presumptive paraxial mesoderm2.51e-2083
trunk3.20e-20216
epithelial tube6.72e-20118
skeletal muscle tissue1.03e-1961
striated muscle tissue1.03e-1961
myotome1.03e-1961
multilaminar epithelium1.43e-1982
muscle tissue2.16e-1963
musculature2.16e-1963
musculature of body2.16e-1963
trunk mesenchyme5.05e-19143
unilaminar epithelium1.47e-18138
vessel1.60e-1869
circulatory system6.14e-18113
cardiovascular system1.57e-17110
blood vessel3.56e-1760
epithelial tube open at both ends3.56e-1760
blood vasculature3.56e-1760
vascular cord3.56e-1760
artery5.21e-1642
arterial blood vessel5.21e-1642
arterial system5.21e-1642
mesenchyme8.76e-16238
entire embryonic mesenchyme8.76e-16238
systemic artery5.87e-1433
systemic arterial system5.87e-1433
multi-cellular organism4.29e-13659
organism subdivision4.85e-13365
multi-tissue structure2.48e-11347
cell layer3.64e-11312
epithelium1.18e-10309
mesoderm2.33e-10448
mesoderm-derived structure2.33e-10448
presumptive mesoderm2.33e-10448
primary circulatory organ4.10e-1027
anatomical system5.08e-10625
heart6.02e-1024
primitive heart tube6.02e-1024
primary heart field6.02e-1024
anterior lateral plate mesoderm6.02e-1024
heart tube6.02e-1024
heart primordium6.02e-1024
cardiac mesoderm6.02e-1024
cardiogenic plate6.02e-1024
heart rudiment6.02e-1024
anatomical group9.32e-10626
anatomical cluster1.29e-08286
aorta3.06e-0821
aortic system3.06e-0821
surface structure7.07e-0895
compound organ1.36e-0769
anatomical conduit1.49e-07241
adipose tissue2.12e-0714
organ component layer4.82e-0757
Disease
Ontology termp-valuen
ovarian cancer4.38e-0714


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.