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Coexpression cluster:C659: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0003989!acetyl-CoA carboxylase activity!0.00782859475616166!32$GO:0004075!biotin carboxylase activity!0.00782859475616166!32$GO:0048038!quinone binding!0.00782859475616166!8639$GO:0016421!CoA carboxylase activity!0.00782859475616166!32$GO:0008131!amine oxidase activity!0.00782859475616166!8639$GO:0016885!ligase activity, forming carbon-carbon bonds!0.00782859475616166!32$GO:0005811!lipid particle!0.00958518781345813!57104$GO:0004806!triacylglycerol lipase activity!0.0134161027078255!57104$GO:0009374!biotin binding!0.0134161027078255!32$GO:0016641!oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor!0.0154262469877776!8639$GO:0006629!lipid metabolic process!0.0156475119697776!32;57104$GO:0016638!oxidoreductase activity, acting on the CH-NH2 group of donors!0.0156475119697776!8639$GO:0006633!fatty acid biosynthetic process!0.0370468956978877!32$GO:0016053!organic acid biosynthetic process!0.0370468956978877!32$GO:0046394!carboxylic acid biosynthetic process!0.0370468956978877!32$GO:0005507!copper ion binding!0.0489097875833071!8639$GO:0016298!lipase activity!0.0494498284901388!57104$GO:0016042!lipid catabolic process!0.0494498284901388!57104$GO:0030145!manganese ion binding!0.0494498284901388!32$GO:0009986!cell surface!0.0494498284901388!8639
|gostat_on_coexpression_clusters=GO:0003989!acetyl-CoA carboxylase activity!0.00782859475616166!32$GO:0004075!biotin carboxylase activity!0.00782859475616166!32$GO:0048038!quinone binding!0.00782859475616166!8639$GO:0016421!CoA carboxylase activity!0.00782859475616166!32$GO:0008131!amine oxidase activity!0.00782859475616166!8639$GO:0016885!ligase activity, forming carbon-carbon bonds!0.00782859475616166!32$GO:0005811!lipid particle!0.00958518781345813!57104$GO:0004806!triacylglycerol lipase activity!0.0134161027078255!57104$GO:0009374!biotin binding!0.0134161027078255!32$GO:0016641!oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor!0.0154262469877776!8639$GO:0006629!lipid metabolic process!0.0156475119697776!32;57104$GO:0016638!oxidoreductase activity, acting on the CH-NH2 group of donors!0.0156475119697776!8639$GO:0006633!fatty acid biosynthetic process!0.0370468956978877!32$GO:0016053!organic acid biosynthetic process!0.0370468956978877!32$GO:0046394!carboxylic acid biosynthetic process!0.0370468956978877!32$GO:0005507!copper ion binding!0.0489097875833071!8639$GO:0016298!lipase activity!0.0494498284901388!57104$GO:0016042!lipid catabolic process!0.0494498284901388!57104$GO:0030145!manganese ion binding!0.0494498284901388!32$GO:0009986!cell surface!0.0494498284901388!8639
|id=C659
|id=C659
|ontology_enrichment_celltype=CL:0000136!5.38e-09!15;CL:0002057!7.89e-08!42;CL:0000860!1.02e-07!45
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!3.64e-11!115;UBERON:0000926!2.99e-09!448;UBERON:0004120!2.99e-09!448;UBERON:0006603!2.99e-09!448;UBERON:0003081!3.29e-08!216
}}
}}

Revision as of 14:56, 21 May 2012


Full id: C659_Adipocyte_mature_Mesenchymal_breast_heart_adipose_left



Phase1 CAGE Peaks

Hg19::chr11:819562..819579,+p1@PNPLA2
Hg19::chr11:819601..819612,+p3@PNPLA2
Hg19::chr11:821664..821701,+p7@PNPLA2
Hg19::chr11:822561..822594,-p@chr11:822561..822594
-
Hg19::chr11:825056..825073,-p1@ENST00000528982
Hg19::chr12:109704726..109704729,+p19@ACACB
Hg19::chr15:90208696..90208713,-p@chr15:90208696..90208713
-
Hg19::chr17:41003273..41003300,+p2@AOC3
Hg19::chr17:41005249..41005263,+p@chr17:41005249..41005263
+
Hg19::chr17:80382262..80382282,+p@chr17:80382262..80382282
+
Hg19::chr1:171238128..171238142,+p@chr1:171238128..171238142
+
Hg19::chr1:219632507..219632553,-p@chr1:219632507..219632553
-
Hg19::chr3:186574030..186574040,+p@chr3:186574030..186574040
+


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:0003989acetyl-CoA carboxylase activity0.00782859475616166
GO:0004075biotin carboxylase activity0.00782859475616166
GO:0048038quinone binding0.00782859475616166
GO:0016421CoA carboxylase activity0.00782859475616166
GO:0008131amine oxidase activity0.00782859475616166
GO:0016885ligase activity, forming carbon-carbon bonds0.00782859475616166
GO:0005811lipid particle0.00958518781345813
GO:0004806triacylglycerol lipase activity0.0134161027078255
GO:0009374biotin binding0.0134161027078255
GO:0016641oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor0.0154262469877776
GO:0006629lipid metabolic process0.0156475119697776
GO:0016638oxidoreductase activity, acting on the CH-NH2 group of donors0.0156475119697776
GO:0006633fatty acid biosynthetic process0.0370468956978877
GO:0016053organic acid biosynthetic process0.0370468956978877
GO:0046394carboxylic acid biosynthetic process0.0370468956978877
GO:0005507copper ion binding0.0489097875833071
GO:0016298lipase activity0.0494498284901388
GO:0016042lipid catabolic process0.0494498284901388
GO:0030145manganese ion binding0.0494498284901388
GO:0009986cell surface0.0494498284901388



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><br>


Cell Type
Ontology termp-valuen
fat cell5.38e-0915
CD14-positive, CD16-negative classical monocyte7.89e-0842
classical monocyte1.02e-0745
Uber Anatomy
Ontology termp-valuen
adult organism3.64e-11115
mesoderm2.99e-09448
mesoderm-derived structure2.99e-09448
presumptive mesoderm2.99e-09448
lateral plate mesoderm3.29e-08216


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.