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Coexpression cluster:C3148

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Full id: C3148_seminal_parotid_ductus_salivary_submaxillary_papillotubular_breast



Phase1 CAGE Peaks

Hg19::chr11:34535332..34535347,-p2@ELF5
Hg19::chr11:34645791..34645836,+p3@EHF
Hg19::chr1:239349935..239349963,-p@chr1:239349935..239349963
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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


GO IDGO nameFDR corrected p-value
GO:0008283cell proliferation0.0164530039462012
GO:0043565sequence-specific DNA binding0.0164530039462012
GO:0003700transcription factor activity0.0264787580730052
GO:0030855epithelial cell differentiation0.0264787580730052
GO:0002009morphogenesis of an epithelium0.0370555220697988
GO:0006355regulation of transcription, DNA-dependent0.0439874875106986
GO:0006351transcription, DNA-dependent0.0439874875106986
GO:0032774RNA biosynthetic process0.0439874875106986
GO:0003677DNA binding0.0439874875106986
GO:0045449regulation of transcription0.0439874875106986
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0439874875106986
GO:0006350transcription0.0439874875106986
GO:0010468regulation of gene expression0.0439874875106986
GO:0045893positive regulation of transcription, DNA-dependent0.0439874875106986
GO:0031323regulation of cellular metabolic process0.0439874875106986
GO:0019222regulation of metabolic process0.0439874875106986
GO:0016070RNA metabolic process0.0439874875106986
GO:0045941positive regulation of transcription0.0445839228449388
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0445839228449388



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>


Cell Type
Ontology termp-valuen
endodermal cell1.89e-1859
endo-epithelial cell1.77e-1643
respiratory epithelial cell3.62e-0913
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure4.10e-21169
endoderm4.10e-21169
presumptive endoderm4.10e-21169
digestive system3.19e-17155
digestive tract3.19e-17155
primitive gut3.19e-17155
subdivision of digestive tract5.94e-17129
endodermal part of digestive tract5.94e-17129
adult organism4.75e-15115
mixed endoderm/mesoderm-derived structure9.95e-15130
foregut1.70e-1298
respiratory system5.84e-1272
immaterial anatomical entity3.57e-10126
orifice2.53e-0935
oral opening5.95e-0921
endo-epithelium1.17e-0882
anatomical space1.84e-08104
respiratory tract1.20e-0753
trunk region element7.90e-07107
Disease
Ontology termp-valuen
adenocarcinoma1.42e-0925
carcinoma2.38e-09106
squamous cell carcinoma6.36e-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.