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MCL coexpression mm9:1896: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0002102;podosome;0.0190643145563095;326618!GO:0031941;filamentous actin;0.0222392630026359;326618!GO:0030863;cortical cytoskeleton;0.0246058504590295;326618!GO:0005884;actin filament;0.0246058504590295;326618!GO:0007163;establishment and/or maintenance of cell polarity;0.0246058504590295;110829!GO:0005925;focal adhesion;0.0246058504590295;110829!GO:0044448;cell cortex part;0.0246058504590295;326618!GO:0005924;cell-substrate adherens junction;0.0246058504590295;110829!GO:0030055;cell-matrix junction;0.0246913353458068;110829!GO:0005938;cell cortex;0.0298314235424678;326618!GO:0005912;adherens junction;0.0317155361742342;110829!GO:0007160;cell-matrix adhesion;0.0317155361742342;110829!GO:0031589;cell-substrate adhesion;0.0317155361742342;110829!GO:0016323;basolateral plasma membrane;0.0317155361742342;110829!
|gostat_on_MCL_coexpression=GO:0002102;podosome;0.0190643145563095;326618!GO:0031941;filamentous actin;0.0222392630026359;326618!GO:0030863;cortical cytoskeleton;0.0246058504590295;326618!GO:0005884;actin filament;0.0246058504590295;326618!GO:0007163;establishment and/or maintenance of cell polarity;0.0246058504590295;110829!GO:0005925;focal adhesion;0.0246058504590295;110829!GO:0044448;cell cortex part;0.0246058504590295;326618!GO:0005924;cell-substrate adherens junction;0.0246058504590295;110829!GO:0030055;cell-matrix junction;0.0246913353458068;110829!GO:0005938;cell cortex;0.0298314235424678;326618!GO:0005912;adherens junction;0.0317155361742342;110829!GO:0007160;cell-matrix adhesion;0.0317155361742342;110829!GO:0031589;cell-substrate adhesion;0.0317155361742342;110829!GO:0016323;basolateral plasma membrane;0.0317155361742342;110829!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005178!3.35e-10!17;UBERON:0005181!3.35e-10!17;UBERON:0002224!3.35e-10!17;UBERON:0000915!3.35e-10!17;UBERON:0008947!3.35e-10!17;UBERON:0003258!3.35e-10!17;UBERON:0002048!1.26e-08!14;UBERON:0000117!1.26e-08!14;UBERON:0000171!1.26e-08!14;UBERON:0000170!1.26e-08!14;UBERON:0005597!1.26e-08!14;UBERON:0000118!1.26e-08!14;UBERON:0005157!7.79e-07!20
}}
}}

Revision as of 17:36, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:57786288..57786355,+p1@Lims1
Mm9::chr8:74659146..74659163,+p3@Tpm4
Mm9::chr8:74659178..74659193,+p1@Tpm4
Mm9::chr8:74659201..74659213,+p2@Tpm4


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:0002102podosome0.0190643145563095
GO:0031941filamentous actin0.0222392630026359
GO:0030863cortical cytoskeleton0.0246058504590295
GO:0005884actin filament0.0246058504590295
GO:0007163establishment and/or maintenance of cell polarity0.0246058504590295
GO:0005925focal adhesion0.0246058504590295
GO:0044448cell cortex part0.0246058504590295
GO:0005924cell-substrate adherens junction0.0246058504590295
GO:0030055cell-matrix junction0.0246913353458068
GO:0005938cell cortex0.0298314235424678
GO:0005912adherens junction0.0317155361742342
GO:0007160cell-matrix adhesion0.0317155361742342
GO:0031589cell-substrate adhesion0.0317155361742342
GO:0016323basolateral plasma membrane0.0317155361742342



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
thoracic cavity element3.35e-1017
thoracic segment organ3.35e-1017
thoracic cavity3.35e-1017
thoracic segment of trunk3.35e-1017
respiratory primordium3.35e-1017
endoderm of foregut3.35e-1017
lung1.26e-0814
respiratory tube1.26e-0814
respiration organ1.26e-0814
pair of lungs1.26e-0814
lung primordium1.26e-0814
lung bud1.26e-0814
epithelial fold7.79e-0720


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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