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Coexpression cluster:C330: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0047536!2-aminoadipate transaminase activity!0.0128024012211761!51166$GO:0003829!beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity!0.0128024012211761!2650$GO:0016212!kynurenine-oxoglutarate transaminase activity!0.0128024012211761!51166$GO:0001676!long-chain fatty acid metabolic process!0.0128024012211761!10965$GO:0016290!palmitoyl-CoA hydrolase activity!0.0191979495576364!10965$GO:0000038!very-long-chain fatty acid metabolic process!0.0191979495576364!10965$GO:0006637!acyl-CoA metabolic process!0.0292419644481353!10965$GO:0016291!acyl-CoA thioesterase activity!0.0335726840533861!10965$GO:0016289!CoA hydrolase activity!0.0369368408147647!10965$GO:0006493!protein amino acid O-linked glycosylation!0.0383484563431187!2650$GO:0008375!acetylglucosaminyltransferase activity!0.0489546679572067!2650$GO:0008483!transaminase activity!0.0489546679572067!51166
|gostat_on_coexpression_clusters=GO:0047536!2-aminoadipate transaminase activity!0.0128024012211761!51166$GO:0003829!beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity!0.0128024012211761!2650$GO:0016212!kynurenine-oxoglutarate transaminase activity!0.0128024012211761!51166$GO:0001676!long-chain fatty acid metabolic process!0.0128024012211761!10965$GO:0016290!palmitoyl-CoA hydrolase activity!0.0191979495576364!10965$GO:0000038!very-long-chain fatty acid metabolic process!0.0191979495576364!10965$GO:0006637!acyl-CoA metabolic process!0.0292419644481353!10965$GO:0016291!acyl-CoA thioesterase activity!0.0335726840533861!10965$GO:0016289!CoA hydrolase activity!0.0369368408147647!10965$GO:0006493!protein amino acid O-linked glycosylation!0.0383484563431187!2650$GO:0008375!acetylglucosaminyltransferase activity!0.0489546679572067!2650$GO:0008483!transaminase activity!0.0489546679572067!51166
|id=C330
|id=C330
|ontology_enrichment_celltype=
|ontology_enrichment_disease=DOID:162!2.56e-28!235;DOID:14566!3.34e-28!239;DOID:305!3.44e-19!106;DOID:0050687!3.90e-18!143;DOID:0050686!6.06e-15!137;DOID:299!4.29e-09!25;DOID:1749!2.58e-07!14
|ontology_enrichment_uberon=
}}
}}

Revision as of 14:34, 21 May 2012


Full id: C330_bronchioalveolar_oral_signet_embryonic_lymphangiectasia_testis_adult



Phase1 CAGE Peaks

Hg19::chr11:106266838..106266843,+p@chr11:106266838..106266843
+
Hg19::chr11:15583363..15583369,+p@chr11:15583363..15583369
+
Hg19::chr11:41809203..41809208,-p@chr11:41809203..41809208
-
Hg19::chr11:69002103..69002105,-p@chr11:69002103..69002105
-
Hg19::chr11:69002371..69002382,-p@chr11:69002371..69002382
-
Hg19::chr11:69002385..69002407,-p@chr11:69002385..69002407
-
Hg19::chr12:47628787..47628808,+p10@FAM113B
Hg19::chr13:111618030..111618074,+p@chr13:111618030..111618074
+
Hg19::chr13:111629545..111629550,+p@chr13:111629545..111629550
+
Hg19::chr13:70823810..70823813,+p@chr13:70823810..70823813
+
Hg19::chr14:36536932..36536937,-p@chr14:36536932..36536937
-
Hg19::chr14:74034310..74034345,+p4@ACOT2
Hg19::chr14:88200641..88200643,-p1@ENST00000556168
Hg19::chr15:40366561..40366568,-p@chr15:40366561..40366568
-
Hg19::chr15:75356166..75356171,+p@chr15:75356166..75356171
+
Hg19::chr17:66077866..66077872,+p@chr17:66077866..66077872
+
Hg19::chr1:166958538..166958552,+p2@MAEL
Hg19::chr1:166964233..166964235,+p@chr1:166964233..166964235
+
Hg19::chr1:87994589..87994604,-p@chr1:87994589..87994604
-
Hg19::chr20:26116667..26116670,+p@chr20:26116667..26116670
+
Hg19::chr3:87647430..87647437,-p@chr3:87647430..87647437
-
Hg19::chr4:169956294..169956301,-p@chr4:169956294..169956301
-
Hg19::chr4:171012844..171012850,-p12@AADAT
Hg19::chr4:42315859..42315864,+p@chr4:42315859..42315864
+
Hg19::chr7:16955191..16955205,+p@chr7:16955191..16955205
+
Hg19::chr7:16955957..16955989,+p@chr7:16955957..16955989
+
Hg19::chr7:4833949..4833955,+p@chr7:4833949..4833955
+
Hg19::chr7:5834097..5834103,+p@chr7:5834097..5834103
+
Hg19::chr8:122157279..122157284,-p@chr8:122157279..122157284
-
Hg19::chr8:144260966..144260967,-p@chr8:144260966..144260967
-
Hg19::chr8:15364131..15364145,-p@chr8:15364131..15364145
-
Hg19::chr9:103785643..103785646,-p@chr9:103785643..103785646
-
Hg19::chr9:79057008..79057019,+p5@GCNT1
Hg19::chr9:87024410..87024417,+p@chr9:87024410..87024417
+
Hg19::chrX:48056224..48056233,-p1@SSX5


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:00475362-aminoadipate transaminase activity0.0128024012211761
GO:0003829beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity0.0128024012211761
GO:0016212kynurenine-oxoglutarate transaminase activity0.0128024012211761
GO:0001676long-chain fatty acid metabolic process0.0128024012211761
GO:0016290palmitoyl-CoA hydrolase activity0.0191979495576364
GO:0000038very-long-chain fatty acid metabolic process0.0191979495576364
GO:0006637acyl-CoA metabolic process0.0292419644481353
GO:0016291acyl-CoA thioesterase activity0.0335726840533861
GO:0016289CoA hydrolase activity0.0369368408147647
GO:0006493protein amino acid O-linked glycosylation0.0383484563431187
GO:0008375acetylglucosaminyltransferase activity0.0489546679572067
GO:0008483transaminase activity0.0489546679572067



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><br><br>disease_data<br>


Disease
Ontology termp-valuen
cancer2.56e-28235
disease of cellular proliferation3.34e-28239
carcinoma3.44e-19106
cell type cancer3.90e-18143
organ system cancer6.06e-15137
adenocarcinoma4.29e-0925
squamous cell carcinoma2.58e-0714


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.