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MCL coexpression mm9:792: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0043234;protein complex;0.00580002165270492;232440,68089,14707,11974,66172!GO:0008154;actin polymerization and/or depolymerization;0.00602443029504808;68089,12631!GO:0032991;macromolecular complex;0.00602443029504808;232440,68089,14707,11974,66172!GO:0044446;intracellular organelle part;0.00776976149973157;232440,68089,12631,11974,66172!GO:0044422;organelle part;0.00776976149973157;232440,68089,12631,11974,66172!GO:0030836;positive regulation of actin filament depolymerization;0.0253074409282662;12631!GO:0001842;neural fold formation;0.0299583719443181;12631!GO:0030036;actin cytoskeleton organization and biogenesis;0.0299583719443181;68089,12631!GO:0030029;actin filament-based process;0.0305337940963763;68089,12631!GO:0015629;actin cytoskeleton;0.036334407086668;68089,12631!GO:0051130;positive regulation of cellular component organization and biogenesis;0.0404586405716512;12631!GO:0015991;ATP hydrolysis coupled proton transport;0.0404586405716512;11974!GO:0005885;Arp2/3 protein complex;0.0404586405716512;68089!GO:0003779;actin binding;0.0404586405716512;68089,12631!GO:0015988;energy coupled proton transport, against electrochemical gradient;0.0404586405716512;11974!
|gostat_on_MCL_coexpression=GO:0043234;protein complex;0.00580002165270492;232440,68089,14707,11974,66172!GO:0008154;actin polymerization and/or depolymerization;0.00602443029504808;68089,12631!GO:0032991;macromolecular complex;0.00602443029504808;232440,68089,14707,11974,66172!GO:0044446;intracellular organelle part;0.00776976149973157;232440,68089,12631,11974,66172!GO:0044422;organelle part;0.00776976149973157;232440,68089,12631,11974,66172!GO:0030836;positive regulation of actin filament depolymerization;0.0253074409282662;12631!GO:0001842;neural fold formation;0.0299583719443181;12631!GO:0030036;actin cytoskeleton organization and biogenesis;0.0299583719443181;68089,12631!GO:0030029;actin filament-based process;0.0305337940963763;68089,12631!GO:0015629;actin cytoskeleton;0.036334407086668;68089,12631!GO:0051130;positive regulation of cellular component organization and biogenesis;0.0404586405716512;12631!GO:0015991;ATP hydrolysis coupled proton transport;0.0404586405716512;11974!GO:0005885;Arp2/3 protein complex;0.0404586405716512;68089!GO:0003779;actin binding;0.0404586405716512;68089,12631!GO:0015988;energy coupled proton transport, against electrochemical gradient;0.0404586405716512;11974!
}}
}}

Revision as of 12:47, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:70265407..70265452,+p1@Med11
Mm9::chr17:26813332..26813333,+p3@Atp6v0e
Mm9::chr17:26813335..26813346,+p2@Atp6v0e
Mm9::chr17:26813350..26813411,+p1@Atp6v0e
Mm9::chr19:5490512..5490525,+p1@Cfl1
p1@LOC100048522
Mm9::chr3:146162814..146162850,+p1@Gm13342
p1@Gm15776
p1@Gm4356
p1@Gng5
p1@LOC100048410
Mm9::chr5:124928339..124928393,-p1@Rilpl2
Mm9::chr6:113328152..113328185,+p1@Arpc4
Mm9::chr6:136756784..136756866,+p1@H2afj


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:0043234protein complex0.00580002165270492
GO:0008154actin polymerization and/or depolymerization0.00602443029504808
GO:0032991macromolecular complex0.00602443029504808
GO:0044446intracellular organelle part0.00776976149973157
GO:0044422organelle part0.00776976149973157
GO:0030836positive regulation of actin filament depolymerization0.0253074409282662
GO:0001842neural fold formation0.0299583719443181
GO:0030036actin cytoskeleton organization and biogenesis0.0299583719443181
GO:0030029actin filament-based process0.0305337940963763
GO:0015629actin cytoskeleton0.036334407086668
GO:0051130positive regulation of cellular component organization and biogenesis0.0404586405716512
GO:0015991ATP hydrolysis coupled proton transport0.0404586405716512
GO:0005885Arp2/3 protein complex0.0404586405716512
GO:0003779actin binding0.0404586405716512
GO:0015988energy coupled proton transport, against electrochemical gradient0.0404586405716512



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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