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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C3285_cerebellum_parietal_medial_middle_hippocampus_olfactory_occipital
|full_id=C3285_cerebellum_parietal_medial_middle_hippocampus_olfactory_occipital
|gostat_on_coexpression_clusters=GO:0015079!potassium ion transmembrane transporter activity!0.018190916284373!3736$GO:0016571!histone methylation!0.0204575515773574!79813$GO:0005251!delayed rectifier potassium channel activity!0.0204575515773574!3736$GO:0008213!protein amino acid alkylation!0.0204575515773574!79813$GO:0006479!protein amino acid methylation!0.0204575515773574!79813$GO:0018024!histone-lysine N-methyltransferase activity!0.0204575515773574!79813$GO:0016278!lysine N-methyltransferase activity!0.0204575515773574!79813$GO:0016279!protein-lysine N-methyltransferase activity!0.0204575515773574!79813$GO:0042054!histone methyltransferase activity!0.0216408714849049!79813$GO:0043414!biopolymer methylation!0.0216408714849049!79813$GO:0016570!histone modification!0.0216408714849049!79813$GO:0008276!protein methyltransferase activity!0.0216408714849049!79813$GO:0008170!N-methyltransferase activity!0.0216408714849049!79813$GO:0016569!covalent chromatin modification!0.0216408714849049!79813$GO:0032259!methylation!0.0290759064854089!79813$GO:0008757!S-adenosylmethionine-dependent methyltransferase activity!0.03255224172755!79813$GO:0008076!voltage-gated potassium channel complex!0.0437947199420364!3736$GO:0030955!potassium ion binding!0.045368852072499!3736$GO:0006730!one-carbon compound metabolic process!0.045368852072499!79813$GO:0003012!muscle system process!0.045368852072499!3736$GO:0005249!voltage-gated potassium channel activity!0.045368852072499!3736$GO:0006936!muscle contraction!0.045368852072499!3736
|id=C3285
|id=C3285
}}
}}

Revision as of 17:38, 18 May 2012


Full id: C3285_cerebellum_parietal_medial_middle_hippocampus_olfactory_occipital



Phase1 CAGE Peaks

Hg19::chr12:5023276..5023280,+p1@AK124568
Hg19::chr3:121026029..121026045,+p@chr3:121026029..121026045
+
Hg19::chr9:140637461..140637472,+p5@EHMT1


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:0015079potassium ion transmembrane transporter activity0.018190916284373
GO:0016571histone methylation0.0204575515773574
GO:0005251delayed rectifier potassium channel activity0.0204575515773574
GO:0008213protein amino acid alkylation0.0204575515773574
GO:0006479protein amino acid methylation0.0204575515773574
GO:0018024histone-lysine N-methyltransferase activity0.0204575515773574
GO:0016278lysine N-methyltransferase activity0.0204575515773574
GO:0016279protein-lysine N-methyltransferase activity0.0204575515773574
GO:0042054histone methyltransferase activity0.0216408714849049
GO:0043414biopolymer methylation0.0216408714849049
GO:0016570histone modification0.0216408714849049
GO:0008276protein methyltransferase activity0.0216408714849049
GO:0008170N-methyltransferase activity0.0216408714849049
GO:0016569covalent chromatin modification0.0216408714849049
GO:0032259methylation0.0290759064854089
GO:0008757S-adenosylmethionine-dependent methyltransferase activity0.03255224172755
GO:0008076voltage-gated potassium channel complex0.0437947199420364
GO:0030955potassium ion binding0.045368852072499
GO:0006730one-carbon compound metabolic process0.045368852072499
GO:0003012muscle system process0.045368852072499
GO:0005249voltage-gated potassium channel activity0.045368852072499
GO:0006936muscle contraction0.045368852072499



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.