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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2685_occipital_medial_parietal_hippocampus_amygdala_caudate_temporal
|full_id=C2685_occipital_medial_parietal_hippocampus_amygdala_caudate_temporal
|gostat_on_coexpression_clusters=GO:0043303!mast cell degranulation!0.016686285279565!10814$GO:0002448!mast cell mediated immunity!0.016686285279565!10814$GO:0045576!mast cell activation!0.016686285279565!10814$GO:0043299!leukocyte degranulation!0.016686285279565!10814$GO:0002444!myeloid leukocyte mediated immunity!0.016686285279565!10814$GO:0019905!syntaxin binding!0.01919116716192!10814$GO:0000149!SNARE binding!0.01919116716192!10814$GO:0007026!negative regulation of microtubule depolymerization!0.01919116716192!4133$GO:0031114!regulation of microtubule depolymerization!0.01919116716192!4133$GO:0007019!microtubule depolymerization!0.01919116716192!4133$GO:0031111!negative regulation of microtubule polymerization or depolymerization!0.01919116716192!4133$GO:0002274!myeloid leukocyte activation!0.01919116716192!10814$GO:0031110!regulation of microtubule polymerization or depolymerization!0.01919116716192!4133$GO:0004693!cyclin-dependent protein kinase activity!0.01919116716192!6792$GO:0031109!microtubule polymerization or depolymerization!0.0195536312730498!4133$GO:0006904!vesicle docking during exocytosis!0.0195536312730498!10814$GO:0048278!vesicle docking!0.0195536312730498!10814$GO:0022406!membrane docking!0.0195536312730498!10814$GO:0046777!protein amino acid autophosphorylation!0.0202839508929141!6792$GO:0051261!protein depolymerization!0.0202839508929141!4133$GO:0016540!protein autoprocessing!0.0202839508929141!6792$GO:0051129!negative regulation of cellular component organization and biogenesis!0.0213340109531962!4133$GO:0045055!regulated secretory pathway!0.0213340109531962!10814$GO:0006836!neurotransmitter transport!0.0288641825117031!10814$GO:0002443!leukocyte mediated immunity!0.0288641825117031!10814$GO:0016485!protein processing!0.0330935746589501!6792$GO:0051128!regulation of cellular component organization and biogenesis!0.0330935746589501!4133$GO:0000226!microtubule cytoskeleton organization and biogenesis!0.0330935746589501!4133$GO:0051248!negative regulation of protein metabolic process!0.0330935746589501!4133$GO:0002252!immune effector process!0.0330935746589501!10814$GO:0006887!exocytosis!0.0330935746589501!10814$GO:0005516!calmodulin binding!0.0406881110191871!4133$GO:0045321!leukocyte activation!0.0488306617395578!10814$GO:0005875!microtubule associated complex!0.0488306617395578!4133
|id=C2685
|id=C2685
}}
}}

Revision as of 17:37, 18 May 2012


Full id: C2685_occipital_medial_parietal_hippocampus_amygdala_caudate_temporal



Phase1 CAGE Peaks

Hg19::chr2:210489781..210489790,+p57@MAP2
Hg19::chr3:35786039..35786054,+p1@MIR128-2
Hg19::chr5:175308859..175308869,+p39@CPLX2
Hg19::chrX:18622158..18622169,+p3@CDKL5


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:0043303mast cell degranulation0.016686285279565
GO:0002448mast cell mediated immunity0.016686285279565
GO:0045576mast cell activation0.016686285279565
GO:0043299leukocyte degranulation0.016686285279565
GO:0002444myeloid leukocyte mediated immunity0.016686285279565
GO:0019905syntaxin binding0.01919116716192
GO:0000149SNARE binding0.01919116716192
GO:0007026negative regulation of microtubule depolymerization0.01919116716192
GO:0031114regulation of microtubule depolymerization0.01919116716192
GO:0007019microtubule depolymerization0.01919116716192
GO:0031111negative regulation of microtubule polymerization or depolymerization0.01919116716192
GO:0002274myeloid leukocyte activation0.01919116716192
GO:0031110regulation of microtubule polymerization or depolymerization0.01919116716192
GO:0004693cyclin-dependent protein kinase activity0.01919116716192
GO:0031109microtubule polymerization or depolymerization0.0195536312730498
GO:0006904vesicle docking during exocytosis0.0195536312730498
GO:0048278vesicle docking0.0195536312730498
GO:0022406membrane docking0.0195536312730498
GO:0046777protein amino acid autophosphorylation0.0202839508929141
GO:0051261protein depolymerization0.0202839508929141
GO:0016540protein autoprocessing0.0202839508929141
GO:0051129negative regulation of cellular component organization and biogenesis0.0213340109531962
GO:0045055regulated secretory pathway0.0213340109531962
GO:0006836neurotransmitter transport0.0288641825117031
GO:0002443leukocyte mediated immunity0.0288641825117031
GO:0016485protein processing0.0330935746589501
GO:0051128regulation of cellular component organization and biogenesis0.0330935746589501
GO:0000226microtubule cytoskeleton organization and biogenesis0.0330935746589501
GO:0051248negative regulation of protein metabolic process0.0330935746589501
GO:0002252immune effector process0.0330935746589501
GO:0006887exocytosis0.0330935746589501
GO:0005516calmodulin binding0.0406881110191871
GO:0045321leukocyte activation0.0488306617395578
GO:0005875microtubule associated complex0.0488306617395578



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.