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MCL coexpression mm9:875: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0031456;glycine betaine biosynthetic process;0.0020270640442667;218865!GO:0008812;choline dehydrogenase activity;0.0020270640442667;218865!GO:0031455;glycine betaine metabolic process;0.0020270640442667;218865!GO:0019285;glycine betaine biosynthetic process from choline;0.0020270640442667;218865!GO:0006577;betaine metabolic process;0.0020270640442667;218865!GO:0006578;betaine biosynthetic process;0.0020270640442667;218865!GO:0019695;choline metabolic process;0.00347477654474607;218865!GO:0042439;ethanolamine and derivative metabolic process;0.00608019263082758;218865!GO:0042401;biogenic amine biosynthetic process;0.0309130210236443;218865!GO:0042398;amino acid derivative biosynthetic process;0.0309130210236443;218865!GO:0004869;cysteine protease inhibitor activity;0.0309130210236443;13011!
|gostat_on_MCL_coexpression=GO:0031456;glycine betaine biosynthetic process;0.0020270640442667;218865!GO:0008812;choline dehydrogenase activity;0.0020270640442667;218865!GO:0031455;glycine betaine metabolic process;0.0020270640442667;218865!GO:0019285;glycine betaine biosynthetic process from choline;0.0020270640442667;218865!GO:0006577;betaine metabolic process;0.0020270640442667;218865!GO:0006578;betaine biosynthetic process;0.0020270640442667;218865!GO:0019695;choline metabolic process;0.00347477654474607;218865!GO:0042439;ethanolamine and derivative metabolic process;0.00608019263082758;218865!GO:0042401;biogenic amine biosynthetic process;0.0309130210236443;218865!GO:0042398;amino acid derivative biosynthetic process;0.0309130210236443;218865!GO:0004869;cysteine protease inhibitor activity;0.0309130210236443;13011!
}}
}}

Revision as of 12:48, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79251669..79251729,-p1@Prss57
Mm9::chr14:30835936..30835962,+p7@Chdh
Mm9::chr2:150396108..150396117,+p4@Cst7
Mm9::chr2:150396145..150396156,+p2@Cst7
Mm9::chr2:150396163..150396219,+p1@Cst7
Mm9::chr2:150396232..150396241,+p3@Cst7
Mm9::chr2:71176256..71176310,-p@chr2:71176256..71176310
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Mm9::chr9:114690908..114690917,-p4@Cmtm7


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:0031456glycine betaine biosynthetic process0.0020270640442667
GO:0008812choline dehydrogenase activity0.0020270640442667
GO:0031455glycine betaine metabolic process0.0020270640442667
GO:0019285glycine betaine biosynthetic process from choline0.0020270640442667
GO:0006577betaine metabolic process0.0020270640442667
GO:0006578betaine biosynthetic process0.0020270640442667
GO:0019695choline metabolic process0.00347477654474607
GO:0042439ethanolamine and derivative metabolic process0.00608019263082758
GO:0042401biogenic amine biosynthetic process0.0309130210236443
GO:0042398amino acid derivative biosynthetic process0.0309130210236443
GO:0004869cysteine protease inhibitor activity0.0309130210236443



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)

{{{tfbs_overrepresentation_jaspar}}}

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