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MCL coexpression mm9:3094: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0019883;antigen processing and presentation of endogenous antigen;0.00379815018504548;14972!GO:0002483;antigen processing and presentation of endogenous peptide antigen;0.00379815018504548;14972!GO:0019885;antigen processing and presentation of endogenous peptide antigen via MHC class I;0.00379815018504548;14972!GO:0042612;MHC class I protein complex;0.0108202796308861;14972!GO:0002474;antigen processing and presentation of peptide antigen via MHC class I;0.0108202796308861;14972!GO:0042611;MHC protein complex;0.0128106795230008;14972!GO:0048002;antigen processing and presentation of peptide antigen;0.013824746690577;14972!GO:0019882;antigen processing and presentation;0.0202668944245671;14972!GO:0009897;external side of plasma membrane;0.0428900342339228;14972!
|gostat_on_MCL_coexpression=GO:0019883;antigen processing and presentation of endogenous antigen;0.00379815018504548;14972!GO:0002483;antigen processing and presentation of endogenous peptide antigen;0.00379815018504548;14972!GO:0019885;antigen processing and presentation of endogenous peptide antigen via MHC class I;0.00379815018504548;14972!GO:0042612;MHC class I protein complex;0.0108202796308861;14972!GO:0002474;antigen processing and presentation of peptide antigen via MHC class I;0.0108202796308861;14972!GO:0042611;MHC protein complex;0.0128106795230008;14972!GO:0048002;antigen processing and presentation of peptide antigen;0.013824746690577;14972!GO:0019882;antigen processing and presentation;0.0202668944245671;14972!GO:0009897;external side of plasma membrane;0.0428900342339228;14972!
}}
}}

Revision as of 13:23, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr17:34136411..34136432,-p2@H2-K1
Mm9::chr7:150813746..150813751,-p1@Tnfrsf26
Mm9::chr7:150813813..150813868,-p2@Tnfrsf26


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:0019883antigen processing and presentation of endogenous antigen0.00379815018504548
GO:0002483antigen processing and presentation of endogenous peptide antigen0.00379815018504548
GO:0019885antigen processing and presentation of endogenous peptide antigen via MHC class I0.00379815018504548
GO:0042612MHC class I protein complex0.0108202796308861
GO:0002474antigen processing and presentation of peptide antigen via MHC class I0.0108202796308861
GO:0042611MHC protein complex0.0128106795230008
GO:0048002antigen processing and presentation of peptide antigen0.013824746690577
GO:0019882antigen processing and presentation0.0202668944245671
GO:0009897external side of plasma membrane0.0428900342339228



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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