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MCL coexpression mm9:858: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0006086;acetyl-CoA biosynthetic process from pyruvate;0.0124219511511219;18604!GO:0004740;pyruvate dehydrogenase (acetyl-transferring) kinase activity;0.0124219511511219;18604!GO:0018106;peptidyl-histidine phosphorylation;0.0124219511511219;18604!GO:0006085;acetyl-CoA biosynthetic process;0.0124219511511219;18604!GO:0018202;peptidyl-histidine modification;0.0124219511511219;18604!GO:0004673;protein histidine kinase activity;0.0172489287925781;18604!GO:0016775;phosphotransferase activity, nitrogenous group as acceptor;0.0206941778467661;18604!GO:0006090;pyruvate metabolic process;0.0271506902753816;18604!GO:0006084;acetyl-CoA metabolic process;0.0390461747357361;18604!
|gostat_on_MCL_coexpression=GO:0006086;acetyl-CoA biosynthetic process from pyruvate;0.0124219511511219;18604!GO:0004740;pyruvate dehydrogenase (acetyl-transferring) kinase activity;0.0124219511511219;18604!GO:0018106;peptidyl-histidine phosphorylation;0.0124219511511219;18604!GO:0006085;acetyl-CoA biosynthetic process;0.0124219511511219;18604!GO:0018202;peptidyl-histidine modification;0.0124219511511219;18604!GO:0004673;protein histidine kinase activity;0.0172489287925781;18604!GO:0016775;phosphotransferase activity, nitrogenous group as acceptor;0.0206941778467661;18604!GO:0006090;pyruvate metabolic process;0.0271506902753816;18604!GO:0006084;acetyl-CoA metabolic process;0.0390461747357361;18604!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004111!3.03e-08!122;UBERON:0007023!1.11e-07!51;UBERON:0000025!4.61e-07!114
}}
}}

Revision as of 21:22, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127806178..127806254,-p@chr10:127806178..127806254
-
Mm9::chr11:60541983..60542004,+p2@Smcr7
Mm9::chr11:94902580..94902585,-p6@Pdk2
Mm9::chr11:94902590..94902611,-p3@Pdk2
Mm9::chr11:94902622..94902644,-p2@Pdk2
Mm9::chr11:94902649..94902688,-p1@Pdk2
Mm9::chr17:36034287..36034314,-p1@2310061I04Rik
Mm9::chr8:23587095..23587158,-p2@AI316807


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:0006086acetyl-CoA biosynthetic process from pyruvate0.0124219511511219
GO:0004740pyruvate dehydrogenase (acetyl-transferring) kinase activity0.0124219511511219
GO:0018106peptidyl-histidine phosphorylation0.0124219511511219
GO:0006085acetyl-CoA biosynthetic process0.0124219511511219
GO:0018202peptidyl-histidine modification0.0124219511511219
GO:0004673protein histidine kinase activity0.0172489287925781
GO:0016775phosphotransferase activity, nitrogenous group as acceptor0.0206941778467661
GO:0006090pyruvate metabolic process0.0271506902753816
GO:0006084acetyl-CoA metabolic process0.0390461747357361



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
anatomical conduit3.03e-08122
adult organism1.11e-0751
tube4.61e-07114


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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