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MCL coexpression mm9:1534: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0016403;dimethylargininase activity;0.0140581485744978;51793!GO:0007263;nitric oxide mediated signal transduction;0.0140581485744978;51793!GO:0006527;arginine catabolic process;0.0140581485744978;51793!GO:0009065;glutamine family amino acid catabolic process;0.0140581485744978;51793!GO:0006525;arginine metabolic process;0.0140581485744978;51793!GO:0000051;urea cycle intermediate metabolic process;0.0140581485744978;51793!GO:0016813;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines;0.0144590175354349;51793!GO:0046209;nitric oxide metabolic process;0.0159295124047435;51793!GO:0006809;nitric oxide biosynthetic process;0.0159295124047435;51793!GO:0009064;glutamine family amino acid metabolic process;0.0252907999632458;51793!GO:0009063;amino acid catabolic process;0.0352383780418792;51793!GO:0009310;amine catabolic process;0.0360999982242433;51793!GO:0044270;nitrogen compound catabolic process;0.0360999982242433;51793!GO:0046982;protein heterodimerization activity;0.0360999982242433;!GO:0044271;nitrogen compound biosynthetic process;0.0426594836289343;51793!GO:0016810;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds;0.0473422454075528;51793!GO:0042803;protein homodimerization activity;0.0499882081296951;!
|gostat_on_MCL_coexpression=GO:0016403;dimethylargininase activity;0.0140581485744978;51793!GO:0007263;nitric oxide mediated signal transduction;0.0140581485744978;51793!GO:0006527;arginine catabolic process;0.0140581485744978;51793!GO:0009065;glutamine family amino acid catabolic process;0.0140581485744978;51793!GO:0006525;arginine metabolic process;0.0140581485744978;51793!GO:0000051;urea cycle intermediate metabolic process;0.0140581485744978;51793!GO:0016813;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines;0.0144590175354349;51793!GO:0046209;nitric oxide metabolic process;0.0159295124047435;51793!GO:0006809;nitric oxide biosynthetic process;0.0159295124047435;51793!GO:0009064;glutamine family amino acid metabolic process;0.0252907999632458;51793!GO:0009063;amino acid catabolic process;0.0352383780418792;51793!GO:0009310;amine catabolic process;0.0360999982242433;51793!GO:0044270;nitrogen compound catabolic process;0.0360999982242433;51793!GO:0046982;protein heterodimerization activity;0.0360999982242433;!GO:0044271;nitrogen compound biosynthetic process;0.0426594836289343;51793!GO:0016810;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds;0.0473422454075528;51793!GO:0042803;protein homodimerization activity;0.0499882081296951;!
}}
}}

Revision as of 12:58, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79896129..79896163,-p6@Tcf3
Mm9::chr17:35195986..35196075,+p1@Ddah2
Mm9::chr17:35196090..35196101,+p4@Ddah2
Mm9::chr17:35196103..35196114,+p3@Ddah2
Mm9::chr17:35196118..35196133,+p2@Ddah2


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:0016403dimethylargininase activity0.0140581485744978
GO:0007263nitric oxide mediated signal transduction0.0140581485744978
GO:0006527arginine catabolic process0.0140581485744978
GO:0009065glutamine family amino acid catabolic process0.0140581485744978
GO:0006525arginine metabolic process0.0140581485744978
GO:0000051urea cycle intermediate metabolic process0.0140581485744978
GO:0016813hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines0.0144590175354349
GO:0046209nitric oxide metabolic process0.0159295124047435
GO:0006809nitric oxide biosynthetic process0.0159295124047435
GO:0009064glutamine family amino acid metabolic process0.0252907999632458
GO:0009063amino acid catabolic process0.0352383780418792
GO:0009310amine catabolic process0.0360999982242433
GO:0044270nitrogen compound catabolic process0.0360999982242433
GO:0046982protein heterodimerization activity0.0360999982242433
GO:0044271nitrogen compound biosynthetic process0.0426594836289343
GO:0016810hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds0.0473422454075528
GO:0042803protein homodimerization activity0.0499882081296951



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>cell_data<br>uberon_data<br>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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