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MCL coexpression mm9:3172: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0004069;aspartate transaminase activity;0.0101585527374333;14719!GO:0044429;mitochondrial part;0.0101585527374333;14719,94063!GO:0000315;organellar large ribosomal subunit;0.0270649807712208;94063!GO:0005762;mitochondrial large ribosomal subunit;0.0270649807712208;94063!GO:0005739;mitochondrion;0.0270649807712208;14719,94063!GO:0008483;transaminase activity;0.0270649807712208;14719!GO:0015934;large ribosomal subunit;0.0270649807712208;94063!GO:0016769;transferase activity, transferring nitrogenous groups;0.0270649807712208;14719!GO:0009058;biosynthetic process;0.0270649807712208;14719,94063!GO:0000313;organellar ribosome;0.0270649807712208;94063!GO:0005761;mitochondrial ribosome;0.0270649807712208;94063!GO:0030170;pyridoxal phosphate binding;0.0281665330698366;14719!GO:0031980;mitochondrial lumen;0.0281665330698366;94063!GO:0005759;mitochondrial matrix;0.0281665330698366;94063!GO:0033279;ribosomal subunit;0.0307453010775401;94063!GO:0006869;lipid transport;0.0343911761270973;14719!GO:0019842;vitamin binding;0.0458887217228312;14719!
|gostat_on_MCL_coexpression=GO:0004069;aspartate transaminase activity;0.0101585527374333;14719!GO:0044429;mitochondrial part;0.0101585527374333;14719,94063!GO:0000315;organellar large ribosomal subunit;0.0270649807712208;94063!GO:0005762;mitochondrial large ribosomal subunit;0.0270649807712208;94063!GO:0005739;mitochondrion;0.0270649807712208;14719,94063!GO:0008483;transaminase activity;0.0270649807712208;14719!GO:0015934;large ribosomal subunit;0.0270649807712208;94063!GO:0016769;transferase activity, transferring nitrogenous groups;0.0270649807712208;14719!GO:0009058;biosynthetic process;0.0270649807712208;14719,94063!GO:0000313;organellar ribosome;0.0270649807712208;94063!GO:0005761;mitochondrial ribosome;0.0270649807712208;94063!GO:0030170;pyridoxal phosphate binding;0.0281665330698366;14719!GO:0031980;mitochondrial lumen;0.0281665330698366;94063!GO:0005759;mitochondrial matrix;0.0281665330698366;94063!GO:0033279;ribosomal subunit;0.0307453010775401;94063!GO:0006869;lipid transport;0.0343911761270973;14719!GO:0019842;vitamin binding;0.0458887217228312;14719!
}}
}}

Revision as of 13:25, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr19:11844847..11844896,+p1@Mrpl16
Mm9::chr8:98412264..98412275,-p2@Got2
Mm9::chr8:98412277..98412315,-p1@Got2


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:0004069aspartate transaminase activity0.0101585527374333
GO:0044429mitochondrial part0.0101585527374333
GO:0000315organellar large ribosomal subunit0.0270649807712208
GO:0005762mitochondrial large ribosomal subunit0.0270649807712208
GO:0005739mitochondrion0.0270649807712208
GO:0008483transaminase activity0.0270649807712208
GO:0015934large ribosomal subunit0.0270649807712208
GO:0016769transferase activity, transferring nitrogenous groups0.0270649807712208
GO:0009058biosynthetic process0.0270649807712208
GO:0000313organellar ribosome0.0270649807712208
GO:0005761mitochondrial ribosome0.0270649807712208
GO:0030170pyridoxal phosphate binding0.0281665330698366
GO:0031980mitochondrial lumen0.0281665330698366
GO:0005759mitochondrial matrix0.0281665330698366
GO:0033279ribosomal subunit0.0307453010775401
GO:0006869lipid transport0.0343911761270973
GO:0019842vitamin binding0.0458887217228312



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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