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MCL coexpression mm9:1115: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0005739;mitochondrion;0.00273927573549553;219189,56690,76137!GO:0004492;methylmalonyl-CoA decarboxylase activity;0.00273927573549553;56690!GO:0050080;malonyl-CoA decarboxylase activity;0.00273927573549553;56690!GO:0006637;acyl-CoA metabolic process;0.0266903824889734;56690!GO:0016831;carboxy-lyase activity;0.0389556011287979;56690!GO:0044444;cytoplasmic part;0.0389556011287979;219189,56690,76137!GO:0006084;acetyl-CoA metabolic process;0.0389556011287979;56690!GO:0016830;carbon-carbon lyase activity;0.0389556011287979;56690!
|gostat_on_MCL_coexpression=GO:0005739;mitochondrion;0.00273927573549553;219189,56690,76137!GO:0004492;methylmalonyl-CoA decarboxylase activity;0.00273927573549553;56690!GO:0050080;malonyl-CoA decarboxylase activity;0.00273927573549553;56690!GO:0006637;acyl-CoA metabolic process;0.0266903824889734;56690!GO:0016831;carboxy-lyase activity;0.0389556011287979;56690!GO:0044444;cytoplasmic part;0.0389556011287979;219189,56690,76137!GO:0006084;acetyl-CoA metabolic process;0.0389556011287979;56690!GO:0016830;carbon-carbon lyase activity;0.0389556011287979;56690!
}}
}}

Revision as of 12:52, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:43655483..43655540,-p1@Ccdc90a
Mm9::chr13:43655543..43655600,-p2@Ccdc90a
Mm9::chr14:79248962..79248973,+p2@1300010F03Rik
Mm9::chr14:79248978..79249027,+p1@1300010F03Rik
Mm9::chr14:79249039..79249050,+p3@1300010F03Rik
Mm9::chr2:30219782..30219824,+p2@Fam73b
Mm9::chr8:121918766..121918854,+p1@Mlycd


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:0005739mitochondrion0.00273927573549553
GO:0004492methylmalonyl-CoA decarboxylase activity0.00273927573549553
GO:0050080malonyl-CoA decarboxylase activity0.00273927573549553
GO:0006637acyl-CoA metabolic process0.0266903824889734
GO:0016831carboxy-lyase activity0.0389556011287979
GO:0044444cytoplasmic part0.0389556011287979
GO:0006084acetyl-CoA metabolic process0.0389556011287979
GO:0016830carbon-carbon lyase activity0.0389556011287979



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)

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