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Coexpression cluster:C938

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Full id: C938_leiomyoma_Smooth_Preadipocyte_hepatic_basal_Adipocyte_Ewing



Phase1 CAGE Peaks

  Short description
Hg19::chr22:38864041..38864150,+ p1@KDELR3
Hg19::chr2:242212239..242212257,- p1@HDLBP
Hg19::chr2:47142884..47142955,- p1@MCFD2
Hg19::chr3:57583064..57583079,- p1@ARF4
Hg19::chr3:57583085..57583121,- p2@ARF4
Hg19::chr3:57583130..57583152,- p3@ARF4
Hg19::chr4:38869366..38869387,+ p3@FAM114A1
Hg19::chr4:38869393..38869404,+ p2@FAM114A1
Hg19::chr4:38869410..38869435,+ p1@FAM114A1


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0016192vesicle-mediated transport0.00428373742142871
GO:0015031protein transport0.00428373742142871
GO:0045184establishment of protein localization0.00428373742142871
GO:0008104protein localization0.00428373742142871
GO:0033036macromolecule localization0.00428373742142871
GO:0005737cytoplasm0.00733327368124839
GO:0006810transport0.00972679873071346
GO:0051234establishment of localization0.00972679873071346
GO:0046923ER retention sequence binding0.00972679873071346
GO:0006621protein retention in ER0.0104499899438909
GO:0051179localization0.0104499899438909
GO:0005048signal sequence binding0.0213109713755608
GO:0032507maintenance of cellular protein localization0.0213109713755608
GO:0051651maintenance of cellular localization0.0213109713755608
GO:0045185maintenance of protein localization0.0213109713755608
GO:0005794Golgi apparatus0.0213109713755608
GO:0051235maintenance of localization0.0298119136755056
GO:0005793ER-Golgi intermediate compartment0.0298119136755056
GO:0005783endoplasmic reticulum0.0301261191994913
GO:0044424intracellular part0.0342977698170602
GO:0008203cholesterol metabolic process0.0462566618772057



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data
disease_data


Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.