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MCL coexpression mm9:685: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0042579;microbody;5.06892505140933e-07;15488,59038,56535,19299!GO:0005777;peroxisome;5.06892505140933e-07;15488,59038,56535,19299!GO:0031903;microbody membrane;0.000345601928474774;56535,19299!GO:0005778;peroxisomal membrane;0.000345601928474774;56535,19299!GO:0044439;peroxisomal part;0.000345601928474774;56535,19299!GO:0044438;microbody part;0.000345601928474774;56535,19299!GO:0060009;Sertoli cell development;0.00633946670214681;15488!GO:0060008;Sertoli cell differentiation;0.0110925471601167;15488!GO:0005779;integral to peroxisomal membrane;0.0158399854089115;56535!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.0158399854089115;15488!GO:0043231;intracellular membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0043227;membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0005498;sterol carrier activity;0.0158399854089115;15488!GO:0031231;intrinsic to peroxisomal membrane;0.0158399854089115;56535!GO:0000038;very-long-chain fatty acid metabolic process;0.0177383537688552;15488!GO:0043229;intracellular organelle;0.0259288222538381;76491,15488,59038,56535,26466,19299!GO:0043226;organelle;0.0259288222538381;76491,15488,59038,56535,26466,19299!GO:0006635;fatty acid beta-oxidation;0.031996890041192;15488!GO:0032934;sterol binding;0.0326401294846484;15488!GO:0008584;male gonad development;0.037637252877947;15488!GO:0019395;fatty acid oxidation;0.0421532680548443;15488!GO:0007031;peroxisome organization and biogenesis;0.0442427498574792;56535!GO:0046546;development of primary male sexual characteristics;0.0442427498574792;15488!GO:0046661;male sex differentiation;0.047837920275482;15488!GO:0044444;cytoplasmic part;0.047837920275482;15488,59038,56535,19299!GO:0005737;cytoplasm;0.0480276401506857;76491,15488,59038,56535,19299!GO:0044424;intracellular part;0.0480276401506857;76491,15488,59038,56535,26466,19299!
|gostat_on_MCL_coexpression=GO:0042579;microbody;5.06892505140933e-07;15488,59038,56535,19299!GO:0005777;peroxisome;5.06892505140933e-07;15488,59038,56535,19299!GO:0031903;microbody membrane;0.000345601928474774;56535,19299!GO:0005778;peroxisomal membrane;0.000345601928474774;56535,19299!GO:0044439;peroxisomal part;0.000345601928474774;56535,19299!GO:0044438;microbody part;0.000345601928474774;56535,19299!GO:0060009;Sertoli cell development;0.00633946670214681;15488!GO:0060008;Sertoli cell differentiation;0.0110925471601167;15488!GO:0005779;integral to peroxisomal membrane;0.0158399854089115;56535!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.0158399854089115;15488!GO:0043231;intracellular membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0043227;membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0005498;sterol carrier activity;0.0158399854089115;15488!GO:0031231;intrinsic to peroxisomal membrane;0.0158399854089115;56535!GO:0000038;very-long-chain fatty acid metabolic process;0.0177383537688552;15488!GO:0043229;intracellular organelle;0.0259288222538381;76491,15488,59038,56535,26466,19299!GO:0043226;organelle;0.0259288222538381;76491,15488,59038,56535,26466,19299!GO:0006635;fatty acid beta-oxidation;0.031996890041192;15488!GO:0032934;sterol binding;0.0326401294846484;15488!GO:0008584;male gonad development;0.037637252877947;15488!GO:0019395;fatty acid oxidation;0.0421532680548443;15488!GO:0007031;peroxisome organization and biogenesis;0.0442427498574792;56535!GO:0046546;development of primary male sexual characteristics;0.0442427498574792;15488!GO:0046661;male sex differentiation;0.047837920275482;15488!GO:0044444;cytoplasmic part;0.047837920275482;15488,59038,56535,19299!GO:0005737;cytoplasm;0.0480276401506857;76491,15488,59038,56535,19299!GO:0044424;intracellular part;0.0480276401506857;76491,15488,59038,56535,26466,19299!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!6.73e-10!31;UBERON:0002365!2.20e-09!25;UBERON:0002330!2.20e-09!25;UBERON:0009854!1.71e-08!23;UBERON:0009856!1.71e-08!23;UBERON:0005177!3.40e-08!79;UBERON:0004119!4.25e-08!118;UBERON:0000925!4.25e-08!118;UBERON:0006595!4.25e-08!118;UBERON:0002107!5.01e-08!22;UBERON:0007499!5.01e-08!22;UBERON:0006925!5.01e-08!22;UBERON:0009497!5.01e-08!22;UBERON:0000015!5.01e-08!22;UBERON:0002423!5.01e-08!22;UBERON:0006235!5.01e-08!22;UBERON:0008835!5.01e-08!22;UBERON:0003894!5.01e-08!22;UBERON:0004161!5.01e-08!22;UBERON:0008836!5.01e-08!22;UBERON:0007023!6.30e-08!51;UBERON:0001007!7.04e-08!116;UBERON:0001555!7.04e-08!116;UBERON:0007026!7.04e-08!116;UBERON:0005409!1.25e-07!47;UBERON:0002100!1.44e-07!90;UBERON:0000344!1.79e-07!15;UBERON:0004921!3.35e-07!114
}}
}}

Revision as of 21:05, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:13272805..13272867,-p1@Pex3
Mm9::chr18:50287923..50287987,+p2@Hsd17b4
Mm9::chr2:154429394..154429429,-p1@Pxmp4
Mm9::chr3:121517837..121517869,-p6@Abcd3
Mm9::chr3:121518055..121518071,-p2@Abcd3
Mm9::chr3:121518078..121518127,-p1@Abcd3
Mm9::chr3:121518333..121518424,-p3@Abcd3
Mm9::chr5:3596306..3596393,+p1@Pex1
Mm9::chr9:106350960..106350986,+p2@Abhd14b
Mm9::chrX:125082958..125083011,-p@chrX:125082958..125083011
-


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

GO IDGO nameFDR corrected p-value
GO:0042579microbody5.06892505140933e-07
GO:0005777peroxisome5.06892505140933e-07
GO:0031903microbody membrane0.000345601928474774
GO:0005778peroxisomal membrane0.000345601928474774
GO:0044439peroxisomal part0.000345601928474774
GO:0044438microbody part0.000345601928474774
GO:0060009Sertoli cell development0.00633946670214681
GO:0060008Sertoli cell differentiation0.0110925471601167
GO:0005779integral to peroxisomal membrane0.0158399854089115
GO:00038573-hydroxyacyl-CoA dehydrogenase activity0.0158399854089115
GO:0043231intracellular membrane-bound organelle0.0158399854089115
GO:0043227membrane-bound organelle0.0158399854089115
GO:0005498sterol carrier activity0.0158399854089115
GO:0031231intrinsic to peroxisomal membrane0.0158399854089115
GO:0000038very-long-chain fatty acid metabolic process0.0177383537688552
GO:0043229intracellular organelle0.0259288222538381
GO:0043226organelle0.0259288222538381
GO:0006635fatty acid beta-oxidation0.031996890041192
GO:0032934sterol binding0.0326401294846484
GO:0008584male gonad development0.037637252877947
GO:0019395fatty acid oxidation0.0421532680548443
GO:0007031peroxisome organization and biogenesis0.0442427498574792
GO:0046546development of primary male sexual characteristics0.0442427498574792
GO:0046661male sex differentiation0.047837920275482
GO:0044444cytoplasmic part0.047837920275482
GO:0005737cytoplasm0.0480276401506857
GO:0044424intracellular part0.0480276401506857



Relative expression of the co-expression cluster over median <br>Analyst:




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>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
intestine6.73e-1031
exocrine gland2.20e-0925
exocrine system2.20e-0925
digestive tract diverticulum1.71e-0823
sac1.71e-0823
trunk region element3.40e-0879
endoderm-derived structure4.25e-08118
endoderm4.25e-08118
presumptive endoderm4.25e-08118
liver5.01e-0822
epithelial sac5.01e-0822
digestive gland5.01e-0822
epithelium of foregut-midgut junction5.01e-0822
anatomical boundary5.01e-0822
hepatobiliary system5.01e-0822
foregut-midgut junction5.01e-0822
hepatic diverticulum5.01e-0822
liver primordium5.01e-0822
septum transversum5.01e-0822
liver bud5.01e-0822
adult organism6.30e-0851
digestive system7.04e-08116
digestive tract7.04e-08116
primitive gut7.04e-08116
gastrointestinal system1.25e-0747
trunk1.44e-0790
mucosa1.79e-0715
subdivision of digestive tract3.35e-07114


TFBS overrepresentation<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}}}

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