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Coexpression cluster:C3794

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Full id: C3794_lens_mesothelioma_bone_myxofibrosarcoma_large_Renal_Fibroblast



Phase1 CAGE Peaks

Hg19::chr19:41725088..41725137,+p1@AXL
Hg19::chr19:41725141..41725153,+p4@AXL
Hg19::chr19:41725256..41725320,+p3@AXL


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 subdivision1.97e-23365
trunk mesenchyme1.25e-20143
multi-tissue structure2.29e-19347
cell layer1.94e-18312
somite4.87e-1883
paraxial mesoderm4.87e-1883
presomitic mesoderm4.87e-1883
presumptive segmental plate4.87e-1883
trunk paraxial mesoderm4.87e-1883
presumptive paraxial mesoderm4.87e-1883
epithelium1.53e-17309
trunk8.18e-16216
multi-cellular organism4.45e-15659
multilaminar epithelium8.94e-1582
anatomical cluster2.80e-14286
anatomical system6.76e-14625
mesenchyme7.35e-14238
entire embryonic mesenchyme7.35e-14238
vasculature7.55e-1479
vascular system7.55e-1479
dermomyotome7.79e-1470
epithelial tube9.75e-14118
anatomical group1.39e-13626
surface structure4.95e-1395
unilaminar epithelium2.57e-12138
artery3.74e-1242
arterial blood vessel3.74e-1242
arterial system3.74e-1242
blood vessel4.36e-1260
epithelial tube open at both ends4.36e-1260
blood vasculature4.36e-1260
vascular cord4.36e-1260
splanchnic layer of lateral plate mesoderm8.80e-1284
vessel4.61e-1169
skeletal muscle tissue5.13e-1161
striated muscle tissue5.13e-1161
myotome5.13e-1161
muscle tissue1.01e-1063
musculature1.01e-1063
musculature of body1.01e-1063
anatomical conduit3.68e-10241
systemic artery8.80e-1033
systemic arterial system8.80e-1033
germ layer1.11e-09604
embryonic tissue1.11e-09604
presumptive structure1.11e-09604
epiblast (generic)1.11e-09604
embryonic structure1.24e-09605
developing anatomical structure1.24e-09605
embryo3.51e-09612
subdivision of head2.01e-0848
organ part3.21e-08219
skin of body4.92e-0840
tube7.76e-08194
integument1.18e-0745
integumental system1.18e-0745
cardiovascular system1.85e-07110
circulatory system4.30e-07113
ectodermal placode9.12e-0729


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.