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MCL coexpression mm9:2578: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0004662;CAAX-protein geranylgeranyltransferase activity;0.00372531294529364;225467!GO:0004661;protein geranylgeranyltransferase activity;0.00558735708805877;225467!GO:0008318;protein prenyltransferase activity;0.0074485847909816;225467!GO:0004659;prenyltransferase activity;0.00837828014762047;225467!GO:0016765;transferase activity, transferring alkyl or aryl (other than methyl) groups;0.0193450930206532;225467!
|gostat_on_MCL_coexpression=GO:0004662;CAAX-protein geranylgeranyltransferase activity;0.00372531294529364;225467!GO:0004661;protein geranylgeranyltransferase activity;0.00558735708805877;225467!GO:0008318;protein prenyltransferase activity;0.0074485847909816;225467!GO:0004659;prenyltransferase activity;0.00837828014762047;225467!GO:0016765;transferase activity, transferring alkyl or aryl (other than methyl) groups;0.0193450930206532;225467!
|ontology_enrichment_celltype=CL:0000239!1.03e-07!6;CL:0000677!1.03e-07!6;CL:0000212!1.03e-07!6;CL:0000584!1.03e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!4.93e-21!31;UBERON:0005409!2.00e-14!47;UBERON:0002113!1.41e-11!14;UBERON:0003918!1.41e-11!14;UBERON:0011143!1.41e-11!14;UBERON:0005095!1.41e-11!14;UBERON:0007687!1.41e-11!14;UBERON:0000344!1.94e-10!15;UBERON:0001242!1.28e-08!13;UBERON:0000060!1.28e-08!13;UBERON:0001262!1.28e-08!13;UBERON:0004786!1.28e-08!13;UBERON:0006554!3.07e-08!18;UBERON:0001008!1.24e-07!19
}}
}}

Revision as of 18:41, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:75029002..75029047,+p6@Ggt1
Mm9::chr9:40273268..40273284,-p19@Gramd1b
Mm9::chr9:40273298..40273319,-p5@Gramd1b


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:0004662CAAX-protein geranylgeranyltransferase activity0.00372531294529364
GO:0004661protein geranylgeranyltransferase activity0.00558735708805877
GO:0008318protein prenyltransferase activity0.0074485847909816
GO:0004659prenyltransferase activity0.00837828014762047
GO:0016765transferase activity, transferring alkyl or aryl (other than methyl) groups0.0193450930206532



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><br>

Cell Type
Ontology termp-valuen
brush border epithelial cell1.03e-076
gut absorptive cell1.03e-076
absorptive cell1.03e-076
enterocyte1.03e-076

Uber Anatomy
Ontology termp-valuen
intestine4.93e-2131
gastrointestinal system2.00e-1447
kidney1.41e-1114
kidney mesenchyme1.41e-1114
upper urinary tract1.41e-1114
kidney rudiment1.41e-1114
kidney field1.41e-1114
mucosa1.94e-1015
intestinal mucosa1.28e-0813
anatomical wall1.28e-0813
wall of intestine1.28e-0813
gastrointestinal system mucosa1.28e-0813
urinary system structure3.07e-0818
renal system1.24e-0719


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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