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MCL coexpression mm9:2692: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0016992;lipoate synthase activity;0.00225977866507979;79464!GO:0017140;lipoic acid synthase activity;0.00225977866507979;79464!GO:0000273;lipoic acid metabolic process;0.00225977866507979;79464!GO:0008450;O-sialoglycoprotein endopeptidase activity;0.00225977866507979;72085!GO:0009107;lipoate biosynthetic process;0.00225977866507979;79464!GO:0009106;lipoate metabolic process;0.00225977866507979;79464!GO:0051538;3 iron, 4 sulfur cluster binding;0.00225977866507979;79464!GO:0009105;lipoic acid biosynthetic process;0.00225977866507979;79464!GO:0016979;lipoate-protein ligase activity;0.00301287313719803;79464!GO:0051539;4 iron, 4 sulfur cluster binding;0.0171583259954854;79464!GO:0051536;iron-sulfur cluster binding;0.0311305298009297;79464!GO:0051540;metal cluster binding;0.0311305298009297;79464!GO:0005739;mitochondrion;0.0311305298009297;79464,67212!GO:0046483;heterocycle metabolic process;0.0424637174339405;79464!GO:0009108;coenzyme biosynthetic process;0.0497947883096622;79464!
|gostat_on_MCL_coexpression=GO:0016992;lipoate synthase activity;0.00225977866507979;79464!GO:0017140;lipoic acid synthase activity;0.00225977866507979;79464!GO:0000273;lipoic acid metabolic process;0.00225977866507979;79464!GO:0008450;O-sialoglycoprotein endopeptidase activity;0.00225977866507979;72085!GO:0009107;lipoate biosynthetic process;0.00225977866507979;79464!GO:0009106;lipoate metabolic process;0.00225977866507979;79464!GO:0051538;3 iron, 4 sulfur cluster binding;0.00225977866507979;79464!GO:0009105;lipoic acid biosynthetic process;0.00225977866507979;79464!GO:0016979;lipoate-protein ligase activity;0.00301287313719803;79464!GO:0051539;4 iron, 4 sulfur cluster binding;0.0171583259954854;79464!GO:0051536;iron-sulfur cluster binding;0.0311305298009297;79464!GO:0051540;metal cluster binding;0.0311305298009297;79464!GO:0005739;mitochondrion;0.0311305298009297;79464,67212!GO:0046483;heterocycle metabolic process;0.0424637174339405;79464!GO:0009108;coenzyme biosynthetic process;0.0497947883096622;79464!
}}
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Revision as of 13:17, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:59015982..59016031,+p1@Mrpl55
Mm9::chr1:53370480..53370526,+p1@Osgepl1
Mm9::chr5:65782762..65782804,+p1@Lias


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:0016992lipoate synthase activity0.00225977866507979
GO:0017140lipoic acid synthase activity0.00225977866507979
GO:0000273lipoic acid metabolic process0.00225977866507979
GO:0008450O-sialoglycoprotein endopeptidase activity0.00225977866507979
GO:0009107lipoate biosynthetic process0.00225977866507979
GO:0009106lipoate metabolic process0.00225977866507979
GO:00515383 iron, 4 sulfur cluster binding0.00225977866507979
GO:0009105lipoic acid biosynthetic process0.00225977866507979
GO:0016979lipoate-protein ligase activity0.00301287313719803
GO:00515394 iron, 4 sulfur cluster binding0.0171583259954854
GO:0051536iron-sulfur cluster binding0.0311305298009297
GO:0051540metal cluster binding0.0311305298009297
GO:0005739mitochondrion0.0311305298009297
GO:0046483heterocycle metabolic process0.0424637174339405
GO:0009108coenzyme biosynthetic process0.0497947883096622



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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