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Coexpression cluster:C3016

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Full id: C3016_papillotubular_mucinous_bile_signet_bronchioalveolar_tubular_clear



Phase1 CAGE Peaks

Hg19::chr10:4191811..4191817,-p@chr10:4191811..4191817
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Hg19::chr17:70713965..70713974,-p@chr17:70713965..70713974
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Hg19::chr22:46022320..46022366,-p@chr22:46022320..46022366
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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


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
respiratory tract2.97e-1753
endoderm-derived structure5.10e-16169
endoderm5.10e-16169
presumptive endoderm5.10e-16169
respiratory primordium9.73e-1638
endoderm of foregut9.73e-1638
respiratory system1.85e-1572
digestive system9.03e-14155
digestive tract9.03e-14155
primitive gut9.03e-14155
segment of respiratory tract1.10e-1246
renal system1.49e-1245
mixed endoderm/mesoderm-derived structure1.90e-12130
urinary system structure9.37e-1244
trunk region element1.25e-11107
duct2.57e-1126
subdivision of digestive tract6.35e-11129
endodermal part of digestive tract6.35e-11129
anatomical space1.09e-10104
cavitated compound organ1.09e-1032
kidney1.19e-1027
kidney mesenchyme1.19e-1027
kidney rudiment1.19e-1027
kidney field1.19e-1027
epithelial bud2.32e-1037
intermediate mesoderm7.97e-1037
immaterial anatomical entity1.11e-09126
foregut2.66e-0998
endo-epithelium4.08e-0982
organ6.69e-09511
larynx6.72e-099
lung1.89e-0822
respiratory tube1.89e-0822
respiration organ1.89e-0822
pair of lungs1.89e-0822
lung primordium1.89e-0822
lung bud1.89e-0822
mesonephros1.95e-0818
pronephros1.95e-0818
nephrogenic cord1.95e-0818
pronephric mesoderm1.95e-0818
rostral part of nephrogenic cord1.95e-0818
presumptive pronephric mesoderm1.95e-0818
thoracic cavity element4.92e-0834
thoracic cavity4.92e-0834
thoracic segment organ1.20e-0735
excretory tube1.29e-0717
mesonephric epithelium1.29e-0717
mesonephric tubule1.29e-0717
nephric duct1.29e-0717
kidney epithelium1.29e-0717
renal duct1.29e-0717
mesonephric duct1.29e-0717
pronephric duct1.29e-0717
mesenchyme1.31e-07238
entire embryonic mesenchyme1.31e-07238
subdivision of trunk1.94e-07113
biliary system2.91e-077
biliary tree2.91e-077
biliary bud2.91e-077
urogenital ridge3.18e-0720
epithelial fold4.01e-0751
nephron epithelium4.54e-0716
nephron4.54e-0716
uriniferous tubule4.54e-0716
metanephric mesenchyme4.54e-0716
nephrogenic mesenchyme4.54e-0716
upper respiratory tract5.69e-0719
mucosa5.78e-0712
renal tubule5.87e-0712
nephron tubule5.87e-0712
nephron tubule epithelium5.87e-0712
Disease
Ontology termp-valuen
carcinoma2.30e-38106
cell type cancer1.91e-25143
cancer8.75e-18235
disease of cellular proliferation7.67e-17239
squamous cell carcinoma8.61e-1514
adenocarcinoma4.03e-1125


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.