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MCL coexpression mm9:2821: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0004337;geranyltranstransferase activity;0.00712192180717902;14593!GO:0004161;dimethylallyltranstransferase activity;0.00712192180717902;14593!GO:0004311;farnesyltranstransferase activity;0.00949537546261371;14593!GO:0008299;isoprenoid biosynthetic process;0.025627680451545;14593!GO:0004659;prenyltransferase activity;0.025627680451545;14593!GO:0006720;isoprenoid metabolic process;0.0343971608512597;14593!
|gostat_on_MCL_coexpression=GO:0004337;geranyltranstransferase activity;0.00712192180717902;14593!GO:0004161;dimethylallyltranstransferase activity;0.00712192180717902;14593!GO:0004311;farnesyltranstransferase activity;0.00949537546261371;14593!GO:0008299;isoprenoid biosynthetic process;0.025627680451545;14593!GO:0004659;prenyltransferase activity;0.025627680451545;14593!GO:0006720;isoprenoid metabolic process;0.0343971608512597;14593!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0010314!2.35e-08!92;UBERON:0007023!9.80e-08!51;UBERON:0002021!4.28e-07!10;UBERON:0000411!4.28e-07!10;UBERON:0001950!4.28e-07!10;UBERON:0003056!6.19e-07!49
}}
}}

Revision as of 19:05, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:14155662..14155703,-p1@Ggps1
Mm9::chr17:79234666..79234713,-p1@Heatr5b
Mm9::chr2:73730645..73730673,-p2@Atf2
p2@LOC100047997


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:0004337geranyltranstransferase activity0.00712192180717902
GO:0004161dimethylallyltranstransferase activity0.00712192180717902
GO:0004311farnesyltranstransferase activity0.00949537546261371
GO:0008299isoprenoid biosynthetic process0.025627680451545
GO:0004659prenyltransferase activity0.025627680451545
GO:0006720isoprenoid metabolic process0.0343971608512597



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
structure with developmental contribution from neural crest2.35e-0892
adult organism9.80e-0851
occipital lobe4.28e-0710
visual cortex4.28e-0710
neocortex4.28e-0710
pre-chordal neural plate6.19e-0749


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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