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Coexpression cluster:C2346

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Full id: C2346_optic_testis_brain_medulla_spinal_duodenum_caudate



Phase1 CAGE Peaks

Hg19::chr15:69278159..69278160,+p@chr15:69278159..69278160
+
Hg19::chr18:74692220..74692236,+p@chr18:74692220..74692236
+
Hg19::chr6:52268150..52268166,+p6@PAQR8
Hg19::chr8:22411901..22411915,+p45@SORBS3


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:0051496positive regulation of stress fiber formation0.00553339899145803
GO:0051495positive regulation of cytoskeleton organization and biogenesis0.00553339899145803
GO:0032233positive regulation of actin filament bundle formation0.00553339899145803
GO:0017166vinculin binding0.00553339899145803
GO:0032231regulation of actin filament bundle formation0.00553339899145803
GO:0051492regulation of stress fiber formation0.00553339899145803
GO:0043149stress fiber formation0.00553339899145803
GO:0043410positive regulation of MAPKKK cascade0.00553339899145803
GO:0051130positive regulation of cellular component organization and biogenesis0.00829924324777567
GO:0043408regulation of MAPKKK cascade0.00829924324777567
GO:0051017actin filament bundle formation0.00955614159098618
GO:0005925focal adhesion0.0151172769961849
GO:0005924cell-substrate adherens junction0.0151172769961849
GO:0030055cell-matrix junction0.0151172769961849
GO:0007015actin filament organization0.0151172769961849
GO:0005912adherens junction0.0172028556795746
GO:0051493regulation of cytoskeleton organization and biogenesis0.0172028556795746
GO:0033043regulation of organelle organization and biogenesis0.0172028556795746
GO:0005200structural constituent of cytoskeleton0.0223717054781359
GO:0005496steroid binding0.0223717054781359
GO:0016323basolateral plasma membrane0.0223717054781359
GO:0051128regulation of cellular component organization and biogenesis0.0247453519321812
GO:0031589cell-substrate adhesion0.0247453519321812
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0292296123884345
GO:0000165MAPKKK cascade0.0324924248843825
GO:0009967positive regulation of signal transduction0.0324924248843825
GO:0045892negative regulation of transcription, DNA-dependent0.0414835460253769
GO:0005886plasma membrane0.0423490121090567
GO:0030036actin cytoskeleton organization and biogenesis0.0469634907591985
GO:0030029actin filament-based process0.0477782347950747



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.