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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1147_Mesenchymal_Renal_Alveolar_Fibroblast_Placental_Pericytes_Hepatic
|full_id=C1147_Mesenchymal_Renal_Alveolar_Fibroblast_Placental_Pericytes_Hepatic
|gostat_on_coexpression_clusters=GO:0016021!integral to membrane!0.000580518378430204!78992;4245;10897;7542;25844;90522;8704$GO:0031224!intrinsic to membrane!0.000580518378430204!78992;4245;10897;7542;25844;90522;8704$GO:0044425!membrane part!0.00101525068808855!78992;4245;10897;7542;25844;90522;8704$GO:0030133!transport vesicle!0.00171329991318636!78992;25844$GO:0016020!membrane!0.0031001539715636!78992;4245;10897;7542;25844;90522;8704$GO:0005794!Golgi apparatus!0.00453665188376353!4245;10897;8704$GO:0008194!UDP-glycosyltransferase activity!0.00470395734307677!4245;8704$GO:0003831!beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity!0.00666117273112001!8704$GO:0004461!lactose synthase activity!0.00666117273112001!8704$GO:0044444!cytoplasmic part!0.00722897183027535!78992;4245;10897;25844;8704$GO:0003945!N-acetyllactosamine synthase activity!0.00726609217133451!8704$GO:0003827!alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity!0.00832499538422828!4245$GO:0016758!transferase activity, transferring hexosyl groups!0.0103938426317109!4245;8704$GO:0043231!intracellular membrane-bound organelle!0.0108150443212596!78992;4245;10897;7542;25844;8704$GO:0043227!membrane-bound organelle!0.0108150443212596!78992;4245;10897;7542;25844;8704$GO:0016023!cytoplasmic membrane-bound vesicle!0.0123942685714032!78992;25844$GO:0031988!membrane-bound vesicle!0.0123942685714032!78992;25844$GO:0000139!Golgi membrane!0.0125714635726644!4245;10897$GO:0044431!Golgi apparatus part!0.0147521770957566!4245;10897$GO:0031410!cytoplasmic vesicle!0.0147521770957566!78992;25844$GO:0031982!vesicle!0.0147521770957566!78992;25844$GO:0016757!transferase activity, transferring glycosyl groups!0.0147521770957566!4245;8704$GO:0035250!UDP-galactosyltransferase activity!0.0147521770957566!8704$GO:0006023!aminoglycan biosynthetic process!0.0174578072166668!4245$GO:0043229!intracellular organelle!0.0192729000207756!78992;4245;10897;7542;25844;8704$GO:0043226!organelle!0.0192729000207756!78992;4245;10897;7542;25844;8704$GO:0005737!cytoplasm!0.0260771053646539!78992;4245;10897;25844;8704$GO:0008378!galactosyltransferase activity!0.0284547695479466!8704$GO:0005793!ER-Golgi intermediate compartment!0.0295262676453299!10897$GO:0008375!acetylglucosaminyltransferase activity!0.0298643231755696!4245$GO:0006022!aminoglycan metabolic process!0.0319533690155563!4245$GO:0005975!carbohydrate metabolic process!0.0319533690155563!4245;8704$GO:0006487!protein amino acid N-linked glycosylation!0.0319533690155563!4245$GO:0044424!intracellular part!0.0413708282874496!78992;4245;10897;7542;25844;8704$GO:0012505!endomembrane system!0.0481188913306716!4245;10897
|id=C1147
|id=C1147
}}
}}

Revision as of 17:33, 18 May 2012


Full id: C1147_Mesenchymal_Renal_Alveolar_Fibroblast_Placental_Pericytes_Hepatic



Phase1 CAGE Peaks

Hg19::chr11:64851666..64851728,+p1@ZFPL1
Hg19::chr11:66056596..66056622,-p1@YIF1A
Hg19::chr19:11039271..11039355,-p1@YIPF2
Hg19::chr19:38806561..38806607,-p1@YIF1B
Hg19::chr1:44444865..44444930,+p1@B4GALT2
Hg19::chr5:180229833..180229860,-p3@MGAT1
Hg19::chr6:43484621..43484706,-p1@YIPF3


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:0016021integral to membrane0.000580518378430204
GO:0031224intrinsic to membrane0.000580518378430204
GO:0044425membrane part0.00101525068808855
GO:0030133transport vesicle0.00171329991318636
GO:0016020membrane0.0031001539715636
GO:0005794Golgi apparatus0.00453665188376353
GO:0008194UDP-glycosyltransferase activity0.00470395734307677
GO:0003831beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity0.00666117273112001
GO:0004461lactose synthase activity0.00666117273112001
GO:0044444cytoplasmic part0.00722897183027535
GO:0003945N-acetyllactosamine synthase activity0.00726609217133451
GO:0003827alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity0.00832499538422828
GO:0016758transferase activity, transferring hexosyl groups0.0103938426317109
GO:0043231intracellular membrane-bound organelle0.0108150443212596
GO:0043227membrane-bound organelle0.0108150443212596
GO:0016023cytoplasmic membrane-bound vesicle0.0123942685714032
GO:0031988membrane-bound vesicle0.0123942685714032
GO:0000139Golgi membrane0.0125714635726644
GO:0044431Golgi apparatus part0.0147521770957566
GO:0031410cytoplasmic vesicle0.0147521770957566
GO:0031982vesicle0.0147521770957566
GO:0016757transferase activity, transferring glycosyl groups0.0147521770957566
GO:0035250UDP-galactosyltransferase activity0.0147521770957566
GO:0006023aminoglycan biosynthetic process0.0174578072166668
GO:0043229intracellular organelle0.0192729000207756
GO:0043226organelle0.0192729000207756
GO:0005737cytoplasm0.0260771053646539
GO:0008378galactosyltransferase activity0.0284547695479466
GO:0005793ER-Golgi intermediate compartment0.0295262676453299
GO:0008375acetylglucosaminyltransferase activity0.0298643231755696
GO:0006022aminoglycan metabolic process0.0319533690155563
GO:0005975carbohydrate metabolic process0.0319533690155563
GO:0006487protein amino acid N-linked glycosylation0.0319533690155563
GO:0044424intracellular part0.0413708282874496
GO:0012505endomembrane system0.0481188913306716



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.