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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C4300_Basophils_Eosinophils_Mast_CD14_CD34_CD4_CD8
|full_id=C4300_Basophils_Eosinophils_Mast_CD14_CD34_CD4_CD8
|gostat_on_coexpression_clusters=GO:0017182!peptidyl-diphthamide metabolic process!0.00147180030613446!285381$GO:0017183!peptidyl-diphthamide biosynthetic process from peptidyl-histidine!0.00147180030613446!285381$GO:0051099!positive regulation of binding!0.00220770045920169!285381$GO:0050709!negative regulation of protein secretion!0.00220770045920169!285381$GO:0018202!peptidyl-histidine modification!0.00323796067349582!285381$GO:0051048!negative regulation of secretion!0.00417010086738098!285381$GO:0050708!regulation of protein secretion!0.00515130107147062!285381$GO:0051098!regulation of binding!0.00515130107147062!285381$GO:0009306!protein secretion!0.00868362180619334!285381$GO:0051046!regulation of secretion!0.00868362180619334!285381$GO:0018193!peptidyl-amino acid modification!0.0161898033674791!285381$GO:0032940!secretion by cell!0.036427057576828!285381$GO:0046903!secretion!0.0434747167350488!285381
|id=C4300
|id=C4300
}}
}}

Revision as of 17:40, 18 May 2012


Full id: C4300_Basophils_Eosinophils_Mast_CD14_CD34_CD4_CD8



Phase1 CAGE Peaks

Hg19::chr3:16306114..16306133,-p5@DPH3
Hg19::chr3:53925835..53925860,-p2@ENST00000487571
Hg19::chr3:53925863..53925933,-p1@ENST00000485414
p1@ENST00000487571
p1@ENST00000488746


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:0017182peptidyl-diphthamide metabolic process0.00147180030613446
GO:0017183peptidyl-diphthamide biosynthetic process from peptidyl-histidine0.00147180030613446
GO:0051099positive regulation of binding0.00220770045920169
GO:0050709negative regulation of protein secretion0.00220770045920169
GO:0018202peptidyl-histidine modification0.00323796067349582
GO:0051048negative regulation of secretion0.00417010086738098
GO:0050708regulation of protein secretion0.00515130107147062
GO:0051098regulation of binding0.00515130107147062
GO:0009306protein secretion0.00868362180619334
GO:0051046regulation of secretion0.00868362180619334
GO:0018193peptidyl-amino acid modification0.0161898033674791
GO:0032940secretion by cell0.036427057576828
GO:0046903secretion0.0434747167350488



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.