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MCL coexpression mm9:1863: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0042789;mRNA transcription from RNA polymerase II promoter;0.00421848463266313;13198!GO:0009299;mRNA transcription;0.00421848463266313;13198!GO:0030503;regulation of cell redox homeostasis;0.00562449209387472;13198!GO:0006983;ER overload response;0.0126537204641331;13198!GO:0030968;unfolded protein response;0.0202426245496088;13198!GO:0033554;cellular response to stress;0.0210814447488924;13198!GO:0006984;ER-nuclear signaling pathway;0.0210814447488924;13198!GO:0051716;cellular response to stimulus;0.0210814447488924;13198!GO:0006986;response to unfolded protein;0.0261331101426934;13198!GO:0051789;response to protein stimulus;0.0261331101426934;13198!GO:0045454;cell redox homeostasis;0.031600499200135;13198!GO:0007050;cell cycle arrest;0.031600499200135;13198!
|gostat_on_MCL_coexpression=GO:0042789;mRNA transcription from RNA polymerase II promoter;0.00421848463266313;13198!GO:0009299;mRNA transcription;0.00421848463266313;13198!GO:0030503;regulation of cell redox homeostasis;0.00562449209387472;13198!GO:0006983;ER overload response;0.0126537204641331;13198!GO:0030968;unfolded protein response;0.0202426245496088;13198!GO:0033554;cellular response to stress;0.0210814447488924;13198!GO:0006984;ER-nuclear signaling pathway;0.0210814447488924;13198!GO:0051716;cellular response to stimulus;0.0210814447488924;13198!GO:0006986;response to unfolded protein;0.0261331101426934;13198!GO:0051789;response to protein stimulus;0.0261331101426934;13198!GO:0045454;cell redox homeostasis;0.031600499200135;13198!GO:0007050;cell cycle arrest;0.031600499200135;13198!
}}
}}

Revision as of 13:04, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:111434155..111434168,-p3@Glipr1
Mm9::chr10:111434204..111434212,-p5@Glipr1
Mm9::chr10:111434222..111434258,-p1@Glipr1
Mm9::chr10:126727842..126727859,+p1@Ddit3


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:0042789mRNA transcription from RNA polymerase II promoter0.00421848463266313
GO:0009299mRNA transcription0.00421848463266313
GO:0030503regulation of cell redox homeostasis0.00562449209387472
GO:0006983ER overload response0.0126537204641331
GO:0030968unfolded protein response0.0202426245496088
GO:0033554cellular response to stress0.0210814447488924
GO:0006984ER-nuclear signaling pathway0.0210814447488924
GO:0051716cellular response to stimulus0.0210814447488924
GO:0006986response to unfolded protein0.0261331101426934
GO:0051789response to protein stimulus0.0261331101426934
GO:0045454cell redox homeostasis0.031600499200135
GO:0007050cell cycle arrest0.031600499200135



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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