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|ontology_enrichment_disease=DOID:2394!1.03e-07!14
|ontology_enrichment_disease=DOID:2394!1.03e-07!14
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}}
}}

Revision as of 17:56, 8 August 2012


Full id: C2033_Preadipocyte_Adipocyte_hepatic_Mesenchymal_Ewing_skeletal_Fibroblast



Phase1 CAGE Peaks

Hg19::chr10:105428458..105428467,-p13@SH3PXD2A
Hg19::chr10:105428481..105428540,-p5@SH3PXD2A
Hg19::chr10:105428550..105428555,-p25@SH3PXD2A
Hg19::chr10:105428632..105428639,-p26@SH3PXD2A


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 mesoderm1.40e-1884
muscle tissue2.70e-1563
musculature2.70e-1563
musculature of body2.70e-1563
skeletal muscle tissue4.71e-1561
striated muscle tissue4.71e-1561
myotome4.71e-1561
dermomyotome9.98e-1470
circulatory system5.74e-12113
primary circulatory organ8.76e-1227
cardiovascular system1.87e-11110
heart1.91e-1124
primitive heart tube1.91e-1124
primary heart field1.91e-1124
anterior lateral plate mesoderm1.91e-1124
heart tube1.91e-1124
heart primordium1.91e-1124
cardiac mesoderm1.91e-1124
cardiogenic plate1.91e-1124
heart rudiment1.91e-1124
blood vessel3.22e-1160
epithelial tube open at both ends3.22e-1160
blood vasculature3.22e-1160
vascular cord3.22e-1160
somite9.15e-1183
paraxial mesoderm9.15e-1183
presomitic mesoderm9.15e-1183
presumptive segmental plate9.15e-1183
trunk paraxial mesoderm9.15e-1183
presumptive paraxial mesoderm9.15e-1183
vasculature1.34e-1079
vascular system1.34e-1079
artery2.96e-1042
arterial blood vessel2.96e-1042
arterial system2.96e-1042
epithelial tube6.50e-10118
vessel1.02e-0969
multilaminar epithelium1.23e-0982
adipose tissue5.29e-0914
systemic artery2.33e-0833
systemic arterial system2.33e-0833
Disease
Ontology termp-valuen
ovarian cancer1.03e-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)

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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.

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