Personal tools

Coexpression cluster:C2104: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{Coexpression_clusters |full_id=C2104_putamen_occipital_temporal_nucleus_caudate_postcentral_paracentral |id=C2104 }}")
 
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2104_putamen_occipital_temporal_nucleus_caudate_postcentral_paracentral
|full_id=C2104_putamen_occipital_temporal_nucleus_caudate_postcentral_paracentral
|gostat_on_coexpression_clusters=GO:0048170!positive regulation of long-term neuronal synaptic plasticity!0.00335570469798658!27020$GO:0048169!regulation of long-term neuronal synaptic plasticity!0.00670973011129312!27020$GO:0048168!regulation of neuronal synaptic plasticity!0.00670973011129312!27020$GO:0042734!presynaptic membrane!0.00670973011129312!27020$GO:0050839!cell adhesion molecule binding!0.00670973011129312!27020$GO:0050769!positive regulation of neurogenesis!0.00670973011129312!27020$GO:0048167!regulation of synaptic plasticity!0.00670973011129312!27020$GO:0050803!regulation of synapse structure and activity!0.00670973011129312!27020$GO:0030178!negative regulation of Wnt receptor signaling pathway!0.00670973011129312!27122$GO:0030111!regulation of Wnt receptor signaling pathway!0.00905693545560676!27122$GO:0050767!regulation of neurogenesis!0.0115861213784452!27020$GO:0048856!anatomical structure development!0.0165377437012502!27020;27122$GO:0051094!positive regulation of developmental process!0.0175356073319971!27020$GO:0007275!multicellular organismal development!0.0186383030498096!27020;27122$GO:0009968!negative regulation of signal transduction!0.0232309476756626!27122$GO:0016055!Wnt receptor signaling pathway!0.0303466189282252!27122$GO:0044456!synapse part!0.0307294334108857!27020$GO:0032502!developmental process!0.0307294334108857!27020;27122$GO:0007156!homophilic cell adhesion!0.0360647672442287!27020$GO:0032501!multicellular organismal process!0.0360647672442287!27020;27122$GO:0050793!regulation of developmental process!0.0367818168635349!27020$GO:0048699!generation of neurons!0.0367818168635349!27020$GO:0022008!neurogenesis!0.0380790084458743!27020$GO:0007268!synaptic transmission!0.040375621903325!27020$GO:0019226!transmission of nerve impulse!0.0440808079690554!27020$GO:0016337!cell-cell adhesion!0.0445576761873194!27020
|id=C2104
|id=C2104
}}
}}

Revision as of 17:36, 18 May 2012


Full id: C2104_putamen_occipital_temporal_nucleus_caudate_postcentral_paracentral



Phase1 CAGE Peaks

Hg19::chr11:12030188..12030199,-p5@DKK3
Hg19::chr11:12030681..12030692,-p10@DKK3
Hg19::chr11:12030770..12030824,-p3@DKK3
Hg19::chr15:73925651..73925773,-p1@NPTN


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:0048170positive regulation of long-term neuronal synaptic plasticity0.00335570469798658
GO:0048169regulation of long-term neuronal synaptic plasticity0.00670973011129312
GO:0048168regulation of neuronal synaptic plasticity0.00670973011129312
GO:0042734presynaptic membrane0.00670973011129312
GO:0050839cell adhesion molecule binding0.00670973011129312
GO:0050769positive regulation of neurogenesis0.00670973011129312
GO:0048167regulation of synaptic plasticity0.00670973011129312
GO:0050803regulation of synapse structure and activity0.00670973011129312
GO:0030178negative regulation of Wnt receptor signaling pathway0.00670973011129312
GO:0030111regulation of Wnt receptor signaling pathway0.00905693545560676
GO:0050767regulation of neurogenesis0.0115861213784452
GO:0048856anatomical structure development0.0165377437012502
GO:0051094positive regulation of developmental process0.0175356073319971
GO:0007275multicellular organismal development0.0186383030498096
GO:0009968negative regulation of signal transduction0.0232309476756626
GO:0016055Wnt receptor signaling pathway0.0303466189282252
GO:0044456synapse part0.0307294334108857
GO:0032502developmental process0.0307294334108857
GO:0007156homophilic cell adhesion0.0360647672442287
GO:0032501multicellular organismal process0.0360647672442287
GO:0050793regulation of developmental process0.0367818168635349
GO:0048699generation of neurons0.0367818168635349
GO:0022008neurogenesis0.0380790084458743
GO:0007268synaptic transmission0.040375621903325
GO:0019226transmission of nerve impulse0.0440808079690554
GO:0016337cell-cell adhesion0.0445576761873194



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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C2104&oldid=1702678"