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MCL coexpression mm9:2636: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0002432;granuloma formation;0.0053323106864007;70450!GO:0002544;chronic inflammatory response;0.0053323106864007;70450!GO:0043320;natural killer cell degranulation;0.0053323106864007;70450!GO:0002467;germinal center formation;0.0133260291583405;70450!GO:0051607;defense response to virus;0.0133260291583405;70450!GO:0043299;leukocyte degranulation;0.0133260291583405;70450!GO:0030101;natural killer cell activation;0.0133260291583405;70450!GO:0042267;natural killer cell mediated cytotoxicity;0.0133260291583405;70450!GO:0002228;natural killer cell mediated immunity;0.0133260291583405;70450!GO:0001909;leukocyte mediated cytotoxicity;0.015988167337366;70450!GO:0001906;cell killing;0.015988167337366;70450!GO:0006909;phagocytosis;0.0253034963031704;70450!GO:0009615;response to virus;0.0301092466608259;70450!GO:0045055;regulated secretory pathway;0.0365023118205945;70450!GO:0006887;exocytosis;0.0386339251212221;70450!GO:0002460;adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains;0.0386339251212221;70450!GO:0045087;innate immune response;0.0386339251212221;70450!GO:0002250;adaptive immune response;0.0386339251212221;70450!GO:0002449;lymphocyte mediated immunity;0.0386339251212221;70450!GO:0002443;leukocyte mediated immunity;0.0394871973167848;70450!GO:0006917;induction of apoptosis;0.0467369230396592;70450!GO:0012502;induction of programmed cell death;0.0467369230396592;70450!GO:0002252;immune effector process;0.0467764630209545;70450!GO:0043065;positive regulation of apoptosis;0.0477725546038868;70450!GO:0051707;response to other organism;0.0477725546038868;70450!GO:0043068;positive regulation of programmed cell death;0.0477725546038868;70450!GO:0010324;membrane invagination;0.0477725546038868;70450!GO:0006897;endocytosis;0.0477725546038868;70450!GO:0045045;secretory pathway;0.0480378536669127;70450!GO:0046649;lymphocyte activation;0.0488882263578446;70450!GO:0045321;leukocyte activation;0.0488882263578446;70450!GO:0032940;secretion by cell;0.0488882263578446;70450!GO:0006954;inflammatory response;0.0488882263578446;70450!GO:0009607;response to biotic stimulus;0.0488882263578446;70450!
|gostat_on_MCL_coexpression=GO:0002432;granuloma formation;0.0053323106864007;70450!GO:0002544;chronic inflammatory response;0.0053323106864007;70450!GO:0043320;natural killer cell degranulation;0.0053323106864007;70450!GO:0002467;germinal center formation;0.0133260291583405;70450!GO:0051607;defense response to virus;0.0133260291583405;70450!GO:0043299;leukocyte degranulation;0.0133260291583405;70450!GO:0030101;natural killer cell activation;0.0133260291583405;70450!GO:0042267;natural killer cell mediated cytotoxicity;0.0133260291583405;70450!GO:0002228;natural killer cell mediated immunity;0.0133260291583405;70450!GO:0001909;leukocyte mediated cytotoxicity;0.015988167337366;70450!GO:0001906;cell killing;0.015988167337366;70450!GO:0006909;phagocytosis;0.0253034963031704;70450!GO:0009615;response to virus;0.0301092466608259;70450!GO:0045055;regulated secretory pathway;0.0365023118205945;70450!GO:0006887;exocytosis;0.0386339251212221;70450!GO:0002460;adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains;0.0386339251212221;70450!GO:0045087;innate immune response;0.0386339251212221;70450!GO:0002250;adaptive immune response;0.0386339251212221;70450!GO:0002449;lymphocyte mediated immunity;0.0386339251212221;70450!GO:0002443;leukocyte mediated immunity;0.0394871973167848;70450!GO:0006917;induction of apoptosis;0.0467369230396592;70450!GO:0012502;induction of programmed cell death;0.0467369230396592;70450!GO:0002252;immune effector process;0.0467764630209545;70450!GO:0043065;positive regulation of apoptosis;0.0477725546038868;70450!GO:0051707;response to other organism;0.0477725546038868;70450!GO:0043068;positive regulation of programmed cell death;0.0477725546038868;70450!GO:0010324;membrane invagination;0.0477725546038868;70450!GO:0006897;endocytosis;0.0477725546038868;70450!GO:0045045;secretory pathway;0.0480378536669127;70450!GO:0046649;lymphocyte activation;0.0488882263578446;70450!GO:0045321;leukocyte activation;0.0488882263578446;70450!GO:0032940;secretion by cell;0.0488882263578446;70450!GO:0006954;inflammatory response;0.0488882263578446;70450!GO:0009607;response to biotic stimulus;0.0488882263578446;70450!
}}
}}

Revision as of 13:16, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:115939241..115939266,-p6@Unc13d
Mm9::chr7:150191582..150191608,+p1@Tspan32
Mm9::chr7:150191623..150191640,+p4@Tspan32


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:0002432granuloma formation0.0053323106864007
GO:0002544chronic inflammatory response0.0053323106864007
GO:0043320natural killer cell degranulation0.0053323106864007
GO:0002467germinal center formation0.0133260291583405
GO:0051607defense response to virus0.0133260291583405
GO:0043299leukocyte degranulation0.0133260291583405
GO:0030101natural killer cell activation0.0133260291583405
GO:0042267natural killer cell mediated cytotoxicity0.0133260291583405
GO:0002228natural killer cell mediated immunity0.0133260291583405
GO:0001909leukocyte mediated cytotoxicity0.015988167337366
GO:0001906cell killing0.015988167337366
GO:0006909phagocytosis0.0253034963031704
GO:0009615response to virus0.0301092466608259
GO:0045055regulated secretory pathway0.0365023118205945
GO:0006887exocytosis0.0386339251212221
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0386339251212221
GO:0045087innate immune response0.0386339251212221
GO:0002250adaptive immune response0.0386339251212221
GO:0002449lymphocyte mediated immunity0.0386339251212221
GO:0002443leukocyte mediated immunity0.0394871973167848
GO:0006917induction of apoptosis0.0467369230396592
GO:0012502induction of programmed cell death0.0467369230396592
GO:0002252immune effector process0.0467764630209545
GO:0043065positive regulation of apoptosis0.0477725546038868
GO:0051707response to other organism0.0477725546038868
GO:0043068positive regulation of programmed cell death0.0477725546038868
GO:0010324membrane invagination0.0477725546038868
GO:0006897endocytosis0.0477725546038868
GO:0045045secretory pathway0.0480378536669127
GO:0046649lymphocyte activation0.0488882263578446
GO:0045321leukocyte activation0.0488882263578446
GO:0032940secretion by cell0.0488882263578446
GO:0006954inflammatory response0.0488882263578446
GO:0009607response to biotic stimulus0.0488882263578446



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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