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MCL coexpression mm9:1804: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0008360;regulation of cell shape;0.0344235690782167;242481!GO:0022603;regulation of anatomical structure morphogenesis;0.0344235690782167;242481!GO:0022604;regulation of cell morphogenesis;0.0344235690782167;242481!GO:0005089;Rho guanyl-nucleotide exchange factor activity;0.0344235690782167;73341!GO:0035023;regulation of Rho protein signal transduction;0.0344235690782167;73341!GO:0005088;Ras guanyl-nucleotide exchange factor activity;0.0344235690782167;73341!GO:0007266;Rho protein signal transduction;0.0399849697541542;73341!GO:0046578;regulation of Ras protein signal transduction;0.0436795315613971;73341!GO:0005085;guanyl-nucleotide exchange factor activity;0.0436795315613971;73341!GO:0051056;regulation of small GTPase mediated signal transduction;0.0436795315613971;73341!GO:0007265;Ras protein signal transduction;0.0439393035088579;73341!GO:0005083;small GTPase regulator activity;0.0439393035088579;73341!
|gostat_on_MCL_coexpression=GO:0008360;regulation of cell shape;0.0344235690782167;242481!GO:0022603;regulation of anatomical structure morphogenesis;0.0344235690782167;242481!GO:0022604;regulation of cell morphogenesis;0.0344235690782167;242481!GO:0005089;Rho guanyl-nucleotide exchange factor activity;0.0344235690782167;73341!GO:0035023;regulation of Rho protein signal transduction;0.0344235690782167;73341!GO:0005088;Ras guanyl-nucleotide exchange factor activity;0.0344235690782167;73341!GO:0007266;Rho protein signal transduction;0.0399849697541542;73341!GO:0046578;regulation of Ras protein signal transduction;0.0436795315613971;73341!GO:0005085;guanyl-nucleotide exchange factor activity;0.0436795315613971;73341!GO:0051056;regulation of small GTPase mediated signal transduction;0.0436795315613971;73341!GO:0007265;Ras protein signal transduction;0.0439393035088579;73341!GO:0005083;small GTPase regulator activity;0.0439393035088579;73341!
}}
}}

Revision as of 13:03, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr4:57580688..57580708,+p3@Palm2
Mm9::chr4:57580717..57580741,+p4@Palm2
Mm9::chr4:57580993..57581008,+p5@Palm2
Mm9::chr4:57581016..57581032,+p6@Palm2
Mm9::chrX:54579450..54579489,-p5@Arhgef6


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:0008360regulation of cell shape0.0344235690782167
GO:0022603regulation of anatomical structure morphogenesis0.0344235690782167
GO:0022604regulation of cell morphogenesis0.0344235690782167
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0344235690782167
GO:0035023regulation of Rho protein signal transduction0.0344235690782167
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0344235690782167
GO:0007266Rho protein signal transduction0.0399849697541542
GO:0046578regulation of Ras protein signal transduction0.0436795315613971
GO:0005085guanyl-nucleotide exchange factor activity0.0436795315613971
GO:0051056regulation of small GTPase mediated signal transduction0.0436795315613971
GO:0007265Ras protein signal transduction0.0439393035088579
GO:0005083small GTPase regulator activity0.0439393035088579



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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