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MCL coexpression mm9:3147: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0060009;Sertoli cell development;0.00802015991679228;15488!GO:0016829;lyase activity;0.00802015991679228;11428,15488!GO:0060008;Sertoli cell differentiation;0.00802015991679228;15488!GO:0030350;iron-responsive element binding;0.00802015991679228;11428!GO:0003994;aconitate hydratase activity;0.00802015991679228;11428!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.0133654684857832;15488!GO:0005498;sterol carrier activity;0.0143193601837251;15488!GO:0000038;very-long-chain fatty acid metabolic process;0.0150345043694134;15488!GO:0006635;fatty acid beta-oxidation;0.0261125941469408;15488!GO:0032934;sterol binding;0.0261125941469408;15488!GO:0008584;male gonad development;0.0261125941469408;15488!GO:0051539;4 iron, 4 sulfur cluster binding;0.0261125941469408;11428!GO:0019395;fatty acid oxidation;0.0261125941469408;15488!GO:0046546;development of primary male sexual characteristics;0.0261125941469408;15488!GO:0055072;iron ion homeostasis;0.0261125941469408;11428!GO:0006099;tricarboxylic acid cycle;0.0261125941469408;11428!GO:0006879;cellular iron ion homeostasis;0.0261125941469408;11428!GO:0046356;acetyl-CoA catabolic process;0.0261125941469408;11428!GO:0009060;aerobic respiration;0.0261125941469408;11428!GO:0046661;male sex differentiation;0.0261125941469408;15488!GO:0009109;coenzyme catabolic process;0.0261125941469408;11428!GO:0045333;cellular respiration;0.0261125941469408;11428!GO:0003729;mRNA binding;0.0261125941469408;11428!GO:0051187;cofactor catabolic process;0.0266899475954307;11428!GO:0006084;acetyl-CoA metabolic process;0.0272207618157703;11428!GO:0051536;iron-sulfur cluster binding;0.031860439234296;11428!GO:0051540;metal cluster binding;0.031860439234296;11428!GO:0005496;steroid binding;0.0335731150194027;15488!GO:0016836;hydro-lyase activity;0.033791094855001;11428!GO:0008406;gonad development;0.0339942505142106;15488!GO:0048608;reproductive structure development;0.0341840166258144;15488!GO:0045137;development of primary sexual characteristics;0.0357358465760238;15488!GO:0016835;carbon-oxygen lyase activity;0.0357358465760238;11428!GO:0015980;energy derivation by oxidation of organic compounds;0.0387850424476847;11428!GO:0007548;sex differentiation;0.0416569334533002;15488!GO:0003006;reproductive developmental process;0.0462140591944883;15488!GO:0042579;microbody;0.0462140591944883;15488!GO:0005777;peroxisome;0.0462140591944883;15488!GO:0030005;cellular di-, tri-valent inorganic cation homeostasis;0.0485922714011397;11428!GO:0055066;di-, tri-valent inorganic cation homeostasis;0.0488655484476814;11428!
|gostat_on_MCL_coexpression=GO:0060009;Sertoli cell development;0.00802015991679228;15488!GO:0016829;lyase activity;0.00802015991679228;11428,15488!GO:0060008;Sertoli cell differentiation;0.00802015991679228;15488!GO:0030350;iron-responsive element binding;0.00802015991679228;11428!GO:0003994;aconitate hydratase activity;0.00802015991679228;11428!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.0133654684857832;15488!GO:0005498;sterol carrier activity;0.0143193601837251;15488!GO:0000038;very-long-chain fatty acid metabolic process;0.0150345043694134;15488!GO:0006635;fatty acid beta-oxidation;0.0261125941469408;15488!GO:0032934;sterol binding;0.0261125941469408;15488!GO:0008584;male gonad development;0.0261125941469408;15488!GO:0051539;4 iron, 4 sulfur cluster binding;0.0261125941469408;11428!GO:0019395;fatty acid oxidation;0.0261125941469408;15488!GO:0046546;development of primary male sexual characteristics;0.0261125941469408;15488!GO:0055072;iron ion homeostasis;0.0261125941469408;11428!GO:0006099;tricarboxylic acid cycle;0.0261125941469408;11428!GO:0006879;cellular iron ion homeostasis;0.0261125941469408;11428!GO:0046356;acetyl-CoA catabolic process;0.0261125941469408;11428!GO:0009060;aerobic respiration;0.0261125941469408;11428!GO:0046661;male sex differentiation;0.0261125941469408;15488!GO:0009109;coenzyme catabolic process;0.0261125941469408;11428!GO:0045333;cellular respiration;0.0261125941469408;11428!GO:0003729;mRNA binding;0.0261125941469408;11428!GO:0051187;cofactor catabolic process;0.0266899475954307;11428!GO:0006084;acetyl-CoA metabolic process;0.0272207618157703;11428!GO:0051536;iron-sulfur cluster binding;0.031860439234296;11428!GO:0051540;metal cluster binding;0.031860439234296;11428!GO:0005496;steroid binding;0.0335731150194027;15488!GO:0016836;hydro-lyase activity;0.033791094855001;11428!GO:0008406;gonad development;0.0339942505142106;15488!GO:0048608;reproductive structure development;0.0341840166258144;15488!GO:0045137;development of primary sexual characteristics;0.0357358465760238;15488!GO:0016835;carbon-oxygen lyase activity;0.0357358465760238;11428!GO:0015980;energy derivation by oxidation of organic compounds;0.0387850424476847;11428!GO:0007548;sex differentiation;0.0416569334533002;15488!GO:0003006;reproductive developmental process;0.0462140591944883;15488!GO:0042579;microbody;0.0462140591944883;15488!GO:0005777;peroxisome;0.0462140591944883;15488!GO:0030005;cellular di-, tri-valent inorganic cation homeostasis;0.0485922714011397;11428!GO:0055066;di-, tri-valent inorganic cation homeostasis;0.0488655484476814;11428!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!2.79e-11!31;UBERON:0000477!4.81e-08!244;UBERON:0000922!1.78e-07!320
}}
}}

Revision as of 19:36, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr18:50287865..50287921,+p1@Hsd17b4
Mm9::chr4:40090401..40090477,+p1@Aco1
Mm9::chr9:55056747..55056796,+p1@Fbxo22


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:0060009Sertoli cell development0.00802015991679228
GO:0016829lyase activity0.00802015991679228
GO:0060008Sertoli cell differentiation0.00802015991679228
GO:0030350iron-responsive element binding0.00802015991679228
GO:0003994aconitate hydratase activity0.00802015991679228
GO:00038573-hydroxyacyl-CoA dehydrogenase activity0.0133654684857832
GO:0005498sterol carrier activity0.0143193601837251
GO:0000038very-long-chain fatty acid metabolic process0.0150345043694134
GO:0006635fatty acid beta-oxidation0.0261125941469408
GO:0032934sterol binding0.0261125941469408
GO:0008584male gonad development0.0261125941469408
GO:00515394 iron, 4 sulfur cluster binding0.0261125941469408
GO:0019395fatty acid oxidation0.0261125941469408
GO:0046546development of primary male sexual characteristics0.0261125941469408
GO:0055072iron ion homeostasis0.0261125941469408
GO:0006099tricarboxylic acid cycle0.0261125941469408
GO:0006879cellular iron ion homeostasis0.0261125941469408
GO:0046356acetyl-CoA catabolic process0.0261125941469408
GO:0009060aerobic respiration0.0261125941469408
GO:0046661male sex differentiation0.0261125941469408
GO:0009109coenzyme catabolic process0.0261125941469408
GO:0045333cellular respiration0.0261125941469408
GO:0003729mRNA binding0.0261125941469408
GO:0051187cofactor catabolic process0.0266899475954307
GO:0006084acetyl-CoA metabolic process0.0272207618157703
GO:0051536iron-sulfur cluster binding0.031860439234296
GO:0051540metal cluster binding0.031860439234296
GO:0005496steroid binding0.0335731150194027
GO:0016836hydro-lyase activity0.033791094855001
GO:0008406gonad development0.0339942505142106
GO:0048608reproductive structure development0.0341840166258144
GO:0045137development of primary sexual characteristics0.0357358465760238
GO:0016835carbon-oxygen lyase activity0.0357358465760238
GO:0015980energy derivation by oxidation of organic compounds0.0387850424476847
GO:0007548sex differentiation0.0416569334533002
GO:0003006reproductive developmental process0.0462140591944883
GO:0042579microbody0.0462140591944883
GO:0005777peroxisome0.0462140591944883
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0485922714011397
GO:0055066di-, tri-valent inorganic cation homeostasis0.0488655484476814



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
intestine2.79e-1131
anatomical cluster4.81e-08244
embryo1.78e-07320


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}}}