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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1804_hippocampus_temporal_duodenum_amygdala_brain_merkel_Neurons
|full_id=C1804_hippocampus_temporal_duodenum_amygdala_brain_merkel_Neurons
|gostat_on_coexpression_clusters=GO:0002448!mast cell mediated immunity!0.00402637148661542!10814$GO:0043303!mast cell degranulation!0.00402637148661542!10814$GO:0045576!mast cell activation!0.00402637148661542!10814$GO:0043299!leukocyte degranulation!0.00402637148661542!10814$GO:0002444!myeloid leukocyte mediated immunity!0.00402637148661542!10814$GO:0019905!syntaxin binding!0.00642968469553287!10814$GO:0000149!SNARE binding!0.00642968469553287!10814$GO:0005158!insulin receptor binding!0.00642968469553287!220164$GO:0002274!myeloid leukocyte activation!0.00670884107822723!10814$GO:0006904!vesicle docking during exocytosis!0.00708040750904987!10814$GO:0048278!vesicle docking!0.00708040750904987!10814$GO:0022406!membrane docking!0.00708040750904987!10814$GO:0045055!regulated secretory pathway!0.00911365272578224!10814$GO:0006836!neurotransmitter transport!0.011619925588591!10814$GO:0002443!leukocyte mediated immunity!0.011619925588591!10814$GO:0032403!protein complex binding!0.0137733392856842!220164$GO:0002252!immune effector process!0.0137733392856842!10814$GO:0006887!exocytosis!0.0137733392856842!10814$GO:0045321!leukocyte activation!0.0211380868929689!10814$GO:0001775!cell activation!0.0233065056081194!10814$GO:0045045!secretory pathway!0.0254773357295268!10814$GO:0032940!secretion by cell!0.0300697653881253!10814$GO:0046903!secretion!0.0371399017736141!10814
|id=C1804
|id=C1804
}}
}}

Revision as of 17:36, 18 May 2012


Full id: C1804_hippocampus_temporal_duodenum_amygdala_brain_merkel_Neurons



Phase1 CAGE Peaks

Hg19::chr18:67068228..67068257,+p2@DOK6
Hg19::chr22:26779052..26779057,+p@chr22:26779052..26779057
+
Hg19::chr5:175223625..175223636,+p15@CPLX2
Hg19::chr8:65492915..65492932,+p1@BHLHE22
Hg19::chr8:65492973..65492989,+p5@BHLHE22


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:0002448mast cell mediated immunity0.00402637148661542
GO:0043303mast cell degranulation0.00402637148661542
GO:0045576mast cell activation0.00402637148661542
GO:0043299leukocyte degranulation0.00402637148661542
GO:0002444myeloid leukocyte mediated immunity0.00402637148661542
GO:0019905syntaxin binding0.00642968469553287
GO:0000149SNARE binding0.00642968469553287
GO:0005158insulin receptor binding0.00642968469553287
GO:0002274myeloid leukocyte activation0.00670884107822723
GO:0006904vesicle docking during exocytosis0.00708040750904987
GO:0048278vesicle docking0.00708040750904987
GO:0022406membrane docking0.00708040750904987
GO:0045055regulated secretory pathway0.00911365272578224
GO:0006836neurotransmitter transport0.011619925588591
GO:0002443leukocyte mediated immunity0.011619925588591
GO:0032403protein complex binding0.0137733392856842
GO:0002252immune effector process0.0137733392856842
GO:0006887exocytosis0.0137733392856842
GO:0045321leukocyte activation0.0211380868929689
GO:0001775cell activation0.0233065056081194
GO:0045045secretory pathway0.0254773357295268
GO:0032940secretion by cell0.0300697653881253
GO:0046903secretion0.0371399017736141



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.