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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2447_Renal_lung_Endothelial_adipose_heart_Hepatic_mature
|full_id=C2447_Renal_lung_Endothelial_adipose_heart_Hepatic_mature
|gostat_on_coexpression_clusters=GO:0007420!brain development!0.00609307390107638!4855;57477$GO:0045602!negative regulation of endothelial cell differentiation!0.00609307390107638!4855$GO:0007417!central nervous system development!0.00609307390107638!4855;57477$GO:0045601!regulation of endothelial cell differentiation!0.00609307390107638!4855$GO:0050890!cognition!0.00974834428639365!57477$GO:0050785!advanced glycation end-product receptor activity!0.01015422637206!4855$GO:0031941!filamentous actin!0.0148902349752388!57477$GO:0001569!patterning of blood vessels!0.0148902349752388!4855$GO:0045446!endothelial cell differentiation!0.0148902349752388!4855$GO:0030879!mammary gland development!0.0164614748358857!4855$GO:0007399!nervous system development!0.0164614748358857!4855;57477$GO:0005884!actin filament!0.0235411650519551!57477$GO:0009880!embryonic pattern specification!0.0235411650519551!4855$GO:0048754!branching morphogenesis of a tube!0.0235411650519551!4855$GO:0001709!cell fate determination!0.0235411650519551!4855$GO:0001763!morphogenesis of a branching structure!0.0243507781932401!4855$GO:0048513!organ development!0.0268345622791575!4855;57477$GO:0048732!gland development!0.0311020580358017!4855$GO:0007219!Notch signaling pathway!0.0320235181964748!4855$GO:0045596!negative regulation of cell differentiation!0.0395315759761216!4855$GO:0045165!cell fate commitment!0.0406579582486095!4855$GO:0048731!system development!0.0406579582486095!4855;57477$GO:0051093!negative regulation of developmental process!0.0407070975971648!4855$GO:0035239!tube morphogenesis!0.0425486448918009!4855
|id=C2447
|id=C2447
}}
}}

Revision as of 17:37, 18 May 2012


Full id: C2447_Renal_lung_Endothelial_adipose_heart_Hepatic_mature



Phase1 CAGE Peaks

Hg19::chr17:8213567..8213579,+p3@ARHGEF15
Hg19::chr6:32191834..32191863,-p1@NOTCH4
Hg19::chrX:50386616..50386637,-p3@SHROOM4
Hg19::chrX:50386648..50386697,-p2@SHROOM4


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:0007420brain development0.00609307390107638
GO:0045602negative regulation of endothelial cell differentiation0.00609307390107638
GO:0007417central nervous system development0.00609307390107638
GO:0045601regulation of endothelial cell differentiation0.00609307390107638
GO:0050890cognition0.00974834428639365
GO:0050785advanced glycation end-product receptor activity0.01015422637206
GO:0031941filamentous actin0.0148902349752388
GO:0001569patterning of blood vessels0.0148902349752388
GO:0045446endothelial cell differentiation0.0148902349752388
GO:0030879mammary gland development0.0164614748358857
GO:0007399nervous system development0.0164614748358857
GO:0005884actin filament0.0235411650519551
GO:0009880embryonic pattern specification0.0235411650519551
GO:0048754branching morphogenesis of a tube0.0235411650519551
GO:0001709cell fate determination0.0235411650519551
GO:0001763morphogenesis of a branching structure0.0243507781932401
GO:0048513organ development0.0268345622791575
GO:0048732gland development0.0311020580358017
GO:0007219Notch signaling pathway0.0320235181964748
GO:0045596negative regulation of cell differentiation0.0395315759761216
GO:0045165cell fate commitment0.0406579582486095
GO:0048731system development0.0406579582486095
GO:0051093negative regulation of developmental process0.0407070975971648
GO:0035239tube morphogenesis0.0425486448918009



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.