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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2770_melanoma_pons_cerebellum_medial_pituitary_parietal_locus
|full_id=C2770_melanoma_pons_cerebellum_medial_pituitary_parietal_locus
|gostat_on_coexpression_clusters=GO:0016079!synaptic vesicle exocytosis!0.0196401586040074!22999$GO:0042734!presynaptic membrane!0.0196401586040074!22999$GO:0017156!calcium ion-dependent exocytosis!0.0196401586040074!22999$GO:0048489!synaptic vesicle transport!0.0203940481014304!22999$GO:0017137!Rab GTPase binding!0.0244696150905867!22999$GO:0006944!membrane fusion!0.0258888161799637!22999$GO:0007269!neurotransmitter secretion!0.0258888161799637!22999$GO:0045055!regulated secretory pathway!0.0274886381140926!22999$GO:0003001!generation of a signal involved in cell-cell signaling!0.0274886381140926!22999$GO:0017016!Ras GTPase binding!0.0274886381140926!22999$GO:0006836!neurotransmitter transport!0.0274886381140926!22999$GO:0001505!regulation of neurotransmitter levels!0.0274886381140926!22999$GO:0005200!structural constituent of cytoskeleton!0.0274886381140926!287$GO:0031267!small GTPase binding!0.0274886381140926!22999$GO:0051020!GTPase binding!0.0292729170215506!22999$GO:0006887!exocytosis!0.031397776726905!22999$GO:0044456!synapse part!0.0428304475215015!22999
|id=C2770
|id=C2770
}}
}}

Revision as of 17:38, 18 May 2012


Full id: C2770_melanoma_pons_cerebellum_medial_pituitary_parietal_locus



Phase1 CAGE Peaks

Hg19::chr4:114037833..114037852,+p12@ANK2
Hg19::chr4:114037991..114038015,+p8@ANK2
Hg19::chr4:114038031..114038042,+p22@ANK2
Hg19::chr6:72926217..72926229,+p15@RIMS1


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:0016079synaptic vesicle exocytosis0.0196401586040074
GO:0042734presynaptic membrane0.0196401586040074
GO:0017156calcium ion-dependent exocytosis0.0196401586040074
GO:0048489synaptic vesicle transport0.0203940481014304
GO:0017137Rab GTPase binding0.0244696150905867
GO:0006944membrane fusion0.0258888161799637
GO:0007269neurotransmitter secretion0.0258888161799637
GO:0045055regulated secretory pathway0.0274886381140926
GO:0003001generation of a signal involved in cell-cell signaling0.0274886381140926
GO:0017016Ras GTPase binding0.0274886381140926
GO:0006836neurotransmitter transport0.0274886381140926
GO:0001505regulation of neurotransmitter levels0.0274886381140926
GO:0005200structural constituent of cytoskeleton0.0274886381140926
GO:0031267small GTPase binding0.0274886381140926
GO:0051020GTPase binding0.0292729170215506
GO:0006887exocytosis0.031397776726905
GO:0044456synapse part0.0428304475215015



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.