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MCL coexpression mm9:1902: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0009257;10-formyltetrahydrofolate biosynthetic process;0.00766955183299808;270685!GO:0004329;formate-tetrahydrofolate ligase activity;0.00766955183299808;270685!GO:0009256;10-formyltetrahydrofolate metabolic process;0.00766955183299808;270685!GO:0008518;reduced folate carrier activity;0.00862777307470345;20509!GO:0009396;folic acid and derivative biosynthetic process;0.016101646955729;270685!GO:0005542;folic acid binding;0.0180693161461342;20509!GO:0006760;folic acid and derivative metabolic process;0.0180693161461342;270685!GO:0004289;subtilase activity;0.0201193395732448;18551!
|gostat_on_MCL_coexpression=GO:0009257;10-formyltetrahydrofolate biosynthetic process;0.00766955183299808;270685!GO:0004329;formate-tetrahydrofolate ligase activity;0.00766955183299808;270685!GO:0009256;10-formyltetrahydrofolate metabolic process;0.00766955183299808;270685!GO:0008518;reduced folate carrier activity;0.00862777307470345;20509!GO:0009396;folic acid and derivative biosynthetic process;0.016101646955729;270685!GO:0005542;folic acid binding;0.0180693161461342;20509!GO:0006760;folic acid and derivative metabolic process;0.0180693161461342;270685!GO:0004289;subtilase activity;0.0201193395732448;18551!
}}
}}

Revision as of 13:04, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:6373332..6373353,-p3@Mthfd1l
Mm9::chr10:76495985..76496003,+p1@Slc19a1
Mm9::chr10:76496005..76496029,+p3@Slc19a1
Mm9::chr10:79786124..79786173,-p2@Pcsk4


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:000925710-formyltetrahydrofolate biosynthetic process0.00766955183299808
GO:0004329formate-tetrahydrofolate ligase activity0.00766955183299808
GO:000925610-formyltetrahydrofolate metabolic process0.00766955183299808
GO:0008518reduced folate carrier activity0.00862777307470345
GO:0009396folic acid and derivative biosynthetic process0.016101646955729
GO:0005542folic acid binding0.0180693161461342
GO:0006760folic acid and derivative metabolic process0.0180693161461342
GO:0004289subtilase activity0.0201193395732448



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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