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MCL coexpression mm9:1100: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0003906;DNA-(apurinic or apyrimidinic site) lyase activity;0.0398772991771403;77622!
|gostat_on_MCL_coexpression=GO:0003906;DNA-(apurinic or apyrimidinic site) lyase activity;0.0398772991771403;77622!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!8.91e-23!22;UBERON:0007499!8.91e-23!22;UBERON:0006925!8.91e-23!22;UBERON:0009497!8.91e-23!22;UBERON:0000015!8.91e-23!22;UBERON:0002423!8.91e-23!22;UBERON:0006235!8.91e-23!22;UBERON:0008835!8.91e-23!22;UBERON:0003894!8.91e-23!22;UBERON:0004161!8.91e-23!22;UBERON:0008836!8.91e-23!22;UBERON:0009854!1.55e-21!23;UBERON:0009856!1.55e-21!23;UBERON:0002365!2.36e-19!25;UBERON:0002330!2.36e-19!25;UBERON:0005256!1.27e-10!45;UBERON:0005172!2.73e-09!49;UBERON:0005173!2.73e-09!49;UBERON:0002417!2.73e-09!49;UBERON:0000916!2.73e-09!49;UBERON:0003914!8.48e-08!47
}}
}}

Revision as of 16:20, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:105185336..105185342,+p@chr12:105185336..105185342
+
Mm9::chr12:105189000..105189047,+p@chr12:105189000..105189047
+
Mm9::chr12:105189292..105189294,-p@chr12:105189292..105189294
-
Mm9::chr12:105195101..105195111,-p1@Serpina1e
Mm9::chr2:84691598..84691619,+p@chr2:84691598..84691619
+
Mm9::chrX:147024406..147024431,-p3@Apex2
Mm9::chrX:147029318..147029324,-p@chrX:147029318..147029324
-


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:0003906DNA-(apurinic or apyrimidinic site) lyase activity0.0398772991771403



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
liver8.91e-2322
epithelial sac8.91e-2322
digestive gland8.91e-2322
epithelium of foregut-midgut junction8.91e-2322
anatomical boundary8.91e-2322
hepatobiliary system8.91e-2322
foregut-midgut junction8.91e-2322
hepatic diverticulum8.91e-2322
liver primordium8.91e-2322
septum transversum8.91e-2322
liver bud8.91e-2322
digestive tract diverticulum1.55e-2123
sac1.55e-2123
exocrine gland2.36e-1925
exocrine system2.36e-1925
trunk mesenchyme1.27e-1045
abdomen element2.73e-0949
abdominal segment element2.73e-0949
abdominal segment of trunk2.73e-0949
abdomen2.73e-0949
epithelial tube8.48e-0847


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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