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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C996_CD4_CD8_Natural_CD19_Whole_blood_Peripheral
|full_id=C996_CD4_CD8_Natural_CD19_Whole_blood_Peripheral
|gostat_on_coexpression_clusters=GO:0031648!protein destabilization!0.00682905290600423!440193$GO:0043621!protein self-association!0.0143370005756672!440193$GO:0030165!PDZ domain binding!0.0143370005756672!440193$GO:0005626!insoluble fraction!0.0143370005756672!440193$GO:0031647!regulation of protein stability!0.0143370005756672!440193$GO:0051260!protein homooligomerization!0.0174407218005431!440193$GO:0001932!regulation of protein amino acid phosphorylation!0.0174407218005431!440193$GO:0033238!regulation of amine metabolic process!0.0174407218005431!440193$GO:0006521!regulation of amino acid metabolic process!0.0174407218005431!440193$GO:0051259!protein oligomerization!0.0181053835448897!440193$GO:0042325!regulation of phosphorylation!0.0181053835448897!440193$GO:0051174!regulation of phosphorus metabolic process!0.0181053835448897!440193$GO:0019220!regulation of phosphate metabolic process!0.0181053835448897!440193$GO:0019904!protein domain specific binding!0.0309176447148182!440193$GO:0016055!Wnt receptor signaling pathway!0.0329376168016293!440193
|id=C996
|id=C996
}}
}}

Revision as of 17:42, 18 May 2012


Full id: C996_CD4_CD8_Natural_CD19_Whole_blood_Peripheral



Phase1 CAGE Peaks

Hg19::chr11:64512524..64512536,-p11@RASGRP2
Hg19::chr11:64512542..64512604,-p4@RASGRP2
Hg19::chr13:74707811..74707813,-p@chr13:74707811..74707813
-
Hg19::chr14:91884115..91884127,-p4@CCDC88C
Hg19::chr1:101707580..101707583,+p@chr1:101707580..101707583
+
Hg19::chr4:40232957..40232960,+p@chr4:40232957..40232960
+
Hg19::chr7:2981171..2981174,-p@chr7:2981171..2981174
-
Hg19::chr7:2983379..2983381,-p@chr7:2983379..2983381
-


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:0031648protein destabilization0.00682905290600423
GO:0043621protein self-association0.0143370005756672
GO:0030165PDZ domain binding0.0143370005756672
GO:0005626insoluble fraction0.0143370005756672
GO:0031647regulation of protein stability0.0143370005756672
GO:0051260protein homooligomerization0.0174407218005431
GO:0001932regulation of protein amino acid phosphorylation0.0174407218005431
GO:0033238regulation of amine metabolic process0.0174407218005431
GO:0006521regulation of amino acid metabolic process0.0174407218005431
GO:0051259protein oligomerization0.0181053835448897
GO:0042325regulation of phosphorylation0.0181053835448897
GO:0051174regulation of phosphorus metabolic process0.0181053835448897
GO:0019220regulation of phosphate metabolic process0.0181053835448897
GO:0019904protein domain specific binding0.0309176447148182
GO:0016055Wnt receptor signaling pathway0.0329376168016293



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.