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Coexpression cluster:C1778

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Full id: C1778_tongue_Corneal_Urothelial_salivary_Esophageal_Sebocyte_Keratinocyte



Phase1 CAGE Peaks

Hg19::chr17:39767475..39767486,-p@chr17:39767475..39767486
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Hg19::chr17:39768786..39768828,-p2@KRT16
Hg19::chr17:39769009..39769026,-p1@KRT16
Hg19::chr1:153003671..153003687,+p1@SPRR1B
Hg19::chr1:153005015..153005047,+p3@SPRR1B


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:0008544epidermis development0.000458597222349455
GO:0007398ectoderm development0.000458597222349455
GO:0045111intermediate filament cytoskeleton0.000600703872260292
GO:0005882intermediate filament0.000600703872260292
GO:0009888tissue development0.000803422474373953
GO:0044430cytoskeletal part0.00607856862473792
GO:0048513organ development0.00802457504051665
GO:0001533cornified envelope0.00802457504051665
GO:0018149peptide cross-linking0.00802457504051665
GO:0005856cytoskeleton0.00802457504051665
GO:0030216keratinocyte differentiation0.00802457504051665
GO:0048731system development0.00859968523366381
GO:0031424keratinization0.00859968523366381
GO:0009913epidermal cell differentiation0.0102953235096531
GO:0048730epidermis morphogenesis0.0107846238557537
GO:0048856anatomical structure development0.0108800945402962
GO:0048729tissue morphogenesis0.012453986215909
GO:0007275multicellular organismal development0.0127161911645875
GO:0005200structural constituent of cytoskeleton0.0131524584277955
GO:0030674protein binding, bridging0.0133756411171839
GO:0043232intracellular non-membrane-bound organelle0.0167855209032985
GO:0043228non-membrane-bound organelle0.0167855209032985
GO:0032502developmental process0.0210957208770382
GO:0032501multicellular organismal process0.0263631339504596
GO:0044446intracellular organelle part0.028415947659475
GO:0044422organelle part0.028415947659475



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
epithelial cell2.97e-19254
endo-epithelial cell5.48e-1443
endodermal cell2.47e-0959
respiratory epithelial cell2.54e-0813
epithelial cell of alimentary canal7.60e-0821
Uber Anatomy
Ontology termp-valuen
respiratory system9.27e-1472
endoderm-derived structure1.23e-13169
endoderm1.23e-13169
presumptive endoderm1.23e-13169
respiratory tract1.51e-1053
digestive system2.30e-09155
digestive tract2.30e-09155
primitive gut2.30e-09155
mixed endoderm/mesoderm-derived structure6.79e-09130
segment of respiratory tract6.68e-0846
surface structure8.25e-0895
respiratory primordium1.35e-0738
endoderm of foregut1.35e-0738
organ component layer1.97e-0757
anatomical space2.14e-07104
organ3.24e-07511
orifice6.23e-0735
oral opening8.41e-0721
organ part8.58e-07219
Disease
Ontology termp-valuen
squamous cell carcinoma2.10e-0914
carcinoma2.25e-07106


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.