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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1040_smooth_aorta_heart_bladder_uterus_penis_cervix
|full_id=C1040_smooth_aorta_heart_bladder_uterus_penis_cervix
|gostat_on_coexpression_clusters=GO:0004614!phosphoglucomutase activity!0.0234374204859477!5239$GO:0004252!serine-type endopeptidase activity!0.0234374204859477!7145;5239$GO:0008236!serine-type peptidase activity!0.0234374204859477!7145;5239$GO:0017171!serine hydrolase activity!0.0234374204859477!7145;5239$GO:0030054!cell junction!0.0234374204859477!7145;5239$GO:0003779!actin binding!0.0234374204859477!7145;171024$GO:0005913!cell-cell adherens junction!0.0237632929688061!5239$GO:0008092!cytoskeletal protein binding!0.0254837298998518!7145;171024$GO:0044267!cellular protein metabolic process!0.0254837298998518!7145;395;5239;51676$GO:0044260!cellular macromolecule metabolic process!0.0254837298998518!7145;395;5239;51676$GO:0005100!Rho GTPase activator activity!0.0254837298998518!395$GO:0005884!actin filament!0.0254837298998518!395$GO:0019538!protein metabolic process!0.0254837298998518!7145;395;5239;51676$GO:0016868!intramolecular transferase activity, phosphotransferases!0.0264162701651135!5239$GO:0030041!actin filament polymerization!0.0264162701651135!395$GO:0004289!subtilase activity!0.0272350536668043!7145$GO:0004175!endopeptidase activity!0.0272350536668043!7145;5239$GO:0005070!SH3/SH2 adaptor activity!0.0347587692753149!395$GO:0005912!adherens junction!0.0362788179553529!5239$GO:0060090!molecular adaptor activity!0.0370633375511242!395$GO:0008154!actin polymerization and/or depolymerization!0.0370633375511242!395$GO:0016866!intramolecular transferase activity!0.0394222340296126!5239$GO:0008233!peptidase activity!0.0465675100398205!7145;5239$GO:0030674!protein binding, bridging!0.0475019981986934!395$GO:0006508!proteolysis!0.0475019981986934!7145;5239$GO:0051258!protein polymerization!0.0475019981986934!395
|id=C1040
|id=C1040
}}
}}

Revision as of 17:33, 18 May 2012


Full id: C1040_smooth_aorta_heart_bladder_uterus_penis_cervix



Phase1 CAGE Peaks

Hg19::chr14:94443066..94443092,-p2@ASB2
Hg19::chr2:218843537..218843559,-p4@TNS1
Hg19::chr2:218843565..218843592,-p8@TNS1
Hg19::chr2:218843623..218843635,-p11@TNS1
Hg19::chr4:119809984..119810024,+p2@SYNPO2
Hg19::chr4:119810034..119810045,+p8@SYNPO2
Hg19::chr9:70971821..70971841,+p2@PGM5
Hg19::chrX:11683221..11683257,-p3@ARHGAP6


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:0004614phosphoglucomutase activity0.0234374204859477
GO:0004252serine-type endopeptidase activity0.0234374204859477
GO:0008236serine-type peptidase activity0.0234374204859477
GO:0017171serine hydrolase activity0.0234374204859477
GO:0030054cell junction0.0234374204859477
GO:0003779actin binding0.0234374204859477
GO:0005913cell-cell adherens junction0.0237632929688061
GO:0008092cytoskeletal protein binding0.0254837298998518
GO:0044267cellular protein metabolic process0.0254837298998518
GO:0044260cellular macromolecule metabolic process0.0254837298998518
GO:0005100Rho GTPase activator activity0.0254837298998518
GO:0005884actin filament0.0254837298998518
GO:0019538protein metabolic process0.0254837298998518
GO:0016868intramolecular transferase activity, phosphotransferases0.0264162701651135
GO:0030041actin filament polymerization0.0264162701651135
GO:0004289subtilase activity0.0272350536668043
GO:0004175endopeptidase activity0.0272350536668043
GO:0005070SH3/SH2 adaptor activity0.0347587692753149
GO:0005912adherens junction0.0362788179553529
GO:0060090molecular adaptor activity0.0370633375511242
GO:0008154actin polymerization and/or depolymerization0.0370633375511242
GO:0016866intramolecular transferase activity0.0394222340296126
GO:0008233peptidase activity0.0465675100398205
GO:0030674protein binding, bridging0.0475019981986934
GO:0006508proteolysis0.0475019981986934
GO:0051258protein polymerization0.0475019981986934



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

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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.