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MCL coexpression mm9:1102: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0005783;endoplasmic reticulum;0.0140907646314896;71853,14828,107513!GO:0044444;cytoplasmic part;0.0177715855052601;66111,71853,14828,107513!GO:0043022;ribosome binding;0.0177715855052601;14828!GO:0006983;ER overload response;0.0177715855052601;14828!GO:0016864;intramolecular oxidoreductase activity, transposing S-S bonds;0.0177715855052601;71853!GO:0003756;protein disulfide isomerase activity;0.0177715855052601;71853!GO:0016862;intramolecular oxidoreductase activity, interconverting keto- and enol-groups;0.0177715855052601;71853!GO:0043021;ribonucleoprotein binding;0.0258913450988841;14828!GO:0033554;cellular response to stress;0.0258913450988841;14828!GO:0006984;ER-nuclear signaling pathway;0.0258913450988841;14828!GO:0008320;protein transmembrane transporter activity;0.0258913450988841;66111!GO:0051716;cellular response to stimulus;0.0258913450988841;14828!GO:0005737;cytoplasm;0.0392027454275295;66111,71853,14828,107513!GO:0045454;cell redox homeostasis;0.0444489900098845;71853!GO:0016860;intramolecular oxidoreductase activity;0.0444489900098845;71853!
|gostat_on_MCL_coexpression=GO:0005783;endoplasmic reticulum;0.0140907646314896;71853,14828,107513!GO:0044444;cytoplasmic part;0.0177715855052601;66111,71853,14828,107513!GO:0043022;ribosome binding;0.0177715855052601;14828!GO:0006983;ER overload response;0.0177715855052601;14828!GO:0016864;intramolecular oxidoreductase activity, transposing S-S bonds;0.0177715855052601;71853!GO:0003756;protein disulfide isomerase activity;0.0177715855052601;71853!GO:0016862;intramolecular oxidoreductase activity, interconverting keto- and enol-groups;0.0177715855052601;71853!GO:0043021;ribonucleoprotein binding;0.0258913450988841;14828!GO:0033554;cellular response to stress;0.0258913450988841;14828!GO:0006984;ER-nuclear signaling pathway;0.0258913450988841;14828!GO:0008320;protein transmembrane transporter activity;0.0258913450988841;66111!GO:0051716;cellular response to stimulus;0.0258913450988841;14828!GO:0005737;cytoplasm;0.0392027454275295;66111,71853,14828,107513!GO:0045454;cell redox homeostasis;0.0444489900098845;71853!GO:0016860;intramolecular oxidoreductase activity;0.0444489900098845;71853!
}}
}}

Revision as of 12:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:17273377..17273407,+p1@Pdia6
Mm9::chr12:17273415..17273424,+p1@LOC100046302
p2@Pdia6
Mm9::chr13:38085980..38086053,-p1@Ssr1
Mm9::chr15:100246175..100246190,-p@chr15:100246175..100246190
-
Mm9::chr2:34627609..34627614,+p1@Hspa5
Mm9::chr9:89599731..89599742,-p@chr9:89599731..89599742
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Mm9::chr9:89599745..89599851,-p1@Tmed3


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:0005783endoplasmic reticulum0.0140907646314896
GO:0044444cytoplasmic part0.0177715855052601
GO:0043022ribosome binding0.0177715855052601
GO:0006983ER overload response0.0177715855052601
GO:0016864intramolecular oxidoreductase activity, transposing S-S bonds0.0177715855052601
GO:0003756protein disulfide isomerase activity0.0177715855052601
GO:0016862intramolecular oxidoreductase activity, interconverting keto- and enol-groups0.0177715855052601
GO:0043021ribonucleoprotein binding0.0258913450988841
GO:0033554cellular response to stress0.0258913450988841
GO:0006984ER-nuclear signaling pathway0.0258913450988841
GO:0008320protein transmembrane transporter activity0.0258913450988841
GO:0051716cellular response to stimulus0.0258913450988841
GO:0005737cytoplasm0.0392027454275295
GO:0045454cell redox homeostasis0.0444489900098845
GO:0016860intramolecular oxidoreductase activity0.0444489900098845



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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