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MCL coexpression mm9:2912: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0008379;thioredoxin peroxidase activity;0.00701235377937627;21672!GO:0030503;regulation of cell redox homeostasis;0.00701235377937627;11792!GO:0051920;peroxiredoxin activity;0.0122699382083509;21672!GO:0003906;DNA-(apurinic or apyrimidinic site) lyase activity;0.0122699382083509;11792!GO:0006950;response to stress;0.0208406163069042;21672,11792!GO:0006800;oxygen and reactive oxygen species metabolic process;0.0256901280940883;21672!GO:0008430;selenium binding;0.0256901280940883;21672!GO:0004601;peroxidase activity;0.0256901280940883;21672!GO:0016684;oxidoreductase activity, acting on peroxide as acceptor;0.0256901280940883;21672!GO:0045454;cell redox homeostasis;0.0286531090740304;11792!GO:0006979;response to oxidative stress;0.0286531090740304;21672!GO:0016835;carbon-oxygen lyase activity;0.0344235690782167;11792!GO:0006916;anti-apoptosis;0.0419865234837695;21672!GO:0004519;endonuclease activity;0.0424781986506297;11792!
|gostat_on_MCL_coexpression=GO:0008379;thioredoxin peroxidase activity;0.00701235377937627;21672!GO:0030503;regulation of cell redox homeostasis;0.00701235377937627;11792!GO:0051920;peroxiredoxin activity;0.0122699382083509;21672!GO:0003906;DNA-(apurinic or apyrimidinic site) lyase activity;0.0122699382083509;11792!GO:0006950;response to stress;0.0208406163069042;21672,11792!GO:0006800;oxygen and reactive oxygen species metabolic process;0.0256901280940883;21672!GO:0008430;selenium binding;0.0256901280940883;21672!GO:0004601;peroxidase activity;0.0256901280940883;21672!GO:0016684;oxidoreductase activity, acting on peroxide as acceptor;0.0256901280940883;21672!GO:0045454;cell redox homeostasis;0.0286531090740304;11792!GO:0006979;response to oxidative stress;0.0286531090740304;21672!GO:0016835;carbon-oxygen lyase activity;0.0344235690782167;11792!GO:0006916;anti-apoptosis;0.0419865234837695;21672!GO:0004519;endonuclease activity;0.0424781986506297;11792!
}}
}}

Revision as of 13:20, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:51544691..51544702,+p3@Apex1
Mm9::chr8:87493517..87493535,+p2@LOC100504815
p4@Prdx2
Mm9::chr8:87493536..87493552,+p1@Prdx2


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:0008379thioredoxin peroxidase activity0.00701235377937627
GO:0030503regulation of cell redox homeostasis0.00701235377937627
GO:0051920peroxiredoxin activity0.0122699382083509
GO:0003906DNA-(apurinic or apyrimidinic site) lyase activity0.0122699382083509
GO:0006950response to stress0.0208406163069042
GO:0006800oxygen and reactive oxygen species metabolic process0.0256901280940883
GO:0008430selenium binding0.0256901280940883
GO:0004601peroxidase activity0.0256901280940883
GO:0016684oxidoreductase activity, acting on peroxide as acceptor0.0256901280940883
GO:0045454cell redox homeostasis0.0286531090740304
GO:0006979response to oxidative stress0.0286531090740304
GO:0016835carbon-oxygen lyase activity0.0344235690782167
GO:0006916anti-apoptosis0.0419865234837695
GO:0004519endonuclease activity0.0424781986506297



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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