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MCL coexpression mm9:1266: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0005764;lysosome;0.013106516696916;64138,16783!GO:0000323;lytic vacuole;0.013106516696916;64138,16783!GO:0005773;vacuole;0.013106516696916;64138,16783!GO:0004720;protein-lysine 6-oxidase activity;0.0190825445023009;19039!GO:0005771;multivesicular body;0.0190825445023009;16783!GO:0048770;pigment granule;0.0190825445023009;16783!GO:0042470;melanosome;0.0190825445023009;16783!GO:0016641;oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor;0.0267023902742217;19039!GO:0016638;oxidoreductase activity, acting on the CH-NH2 group of donors;0.0296595690334634;19039!GO:0005044;scavenger receptor activity;0.0311220741306491;19039!GO:0005770;late endosome;0.0311220741306491;16783!GO:0042383;sarcolemma;0.0311220741306491;16783!
|gostat_on_MCL_coexpression=GO:0005764;lysosome;0.013106516696916;64138,16783!GO:0000323;lytic vacuole;0.013106516696916;64138,16783!GO:0005773;vacuole;0.013106516696916;64138,16783!GO:0004720;protein-lysine 6-oxidase activity;0.0190825445023009;19039!GO:0005771;multivesicular body;0.0190825445023009;16783!GO:0048770;pigment granule;0.0190825445023009;16783!GO:0042470;melanosome;0.0190825445023009;16783!GO:0016641;oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor;0.0267023902742217;19039!GO:0016638;oxidoreductase activity, acting on the CH-NH2 group of donors;0.0296595690334634;19039!GO:0005044;scavenger receptor activity;0.0311220741306491;19039!GO:0005770;late endosome;0.0311220741306491;16783!GO:0042383;sarcolemma;0.0311220741306491;16783!
}}
}}

Revision as of 12:54, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:101443550..101443626,+p1@Tmem106a
Mm9::chr11:118263140..118263278,-p1@Lgals3bp
Mm9::chr2:174264398..174264439,-p1@Ctsz
Mm9::chr2:174264441..174264460,-p4@Ctsz
Mm9::chr8:13159208..13159215,+p3@Lamp1
Mm9::chr8:13159228..13159314,+p1@Lamp1


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:0005764lysosome0.013106516696916
GO:0000323lytic vacuole0.013106516696916
GO:0005773vacuole0.013106516696916
GO:0004720protein-lysine 6-oxidase activity0.0190825445023009
GO:0005771multivesicular body0.0190825445023009
GO:0048770pigment granule0.0190825445023009
GO:0042470melanosome0.0190825445023009
GO:0016641oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor0.0267023902742217
GO:0016638oxidoreductase activity, acting on the CH-NH2 group of donors0.0296595690334634
GO:0005044scavenger receptor activity0.0311220741306491
GO:0005770late endosome0.0311220741306491
GO:0042383sarcolemma0.0311220741306491



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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