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MCL coexpression mm9:1408: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0043296;apical junction complex;0.00272330723700769;13511,16456!GO:0016327;apicolateral plasma membrane;0.00272330723700769;13511,16456!GO:0005911;intercellular junction;0.00504358679126346;13511,16456!GO:0030611;arsenate reductase activity;0.00998877227087679;66866!GO:0030612;arsenate reductase (thioredoxin) activity;0.00998877227087679;66866!GO:0030054;cell junction;0.0162270093294472;13511,16456!GO:0030057;desmosome;0.0166370106841642;13511!GO:0022610;biological adhesion;0.0251358992688552;13511,16456!GO:0007155;cell adhesion;0.0251358992688552;13511,16456!GO:0030855;epithelial cell differentiation;0.0298925102388902;16456!GO:0014704;intercalated disc;0.0339436361587461;13511!GO:0005923;tight junction;0.0483017148894322;16456!
|gostat_on_MCL_coexpression=GO:0043296;apical junction complex;0.00272330723700769;13511,16456!GO:0016327;apicolateral plasma membrane;0.00272330723700769;13511,16456!GO:0005911;intercellular junction;0.00504358679126346;13511,16456!GO:0030611;arsenate reductase activity;0.00998877227087679;66866!GO:0030612;arsenate reductase (thioredoxin) activity;0.00998877227087679;66866!GO:0030054;cell junction;0.0162270093294472;13511,16456!GO:0030057;desmosome;0.0166370106841642;13511!GO:0022610;biological adhesion;0.0251358992688552;13511,16456!GO:0007155;cell adhesion;0.0251358992688552;13511,16456!GO:0030855;epithelial cell differentiation;0.0298925102388902;16456!GO:0014704;intercalated disc;0.0339436361587461;13511!GO:0005923;tight junction;0.0483017148894322;16456!
}}
}}

Revision as of 12:56, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr18:20716593..20716702,+p1@Dsg2
Mm9::chr19:56623069..56623113,+p3@Nhlrc2
Mm9::chr1:173367683..173367697,+p2@F11r
Mm9::chr1:173367699..173367715,+p1@F11r
Mm9::chr1:173367725..173367736,+p3@F11r
Mm9::chr5:91069628..91069721,-p1@Rassf6


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:0043296apical junction complex0.00272330723700769
GO:0016327apicolateral plasma membrane0.00272330723700769
GO:0005911intercellular junction0.00504358679126346
GO:0030611arsenate reductase activity0.00998877227087679
GO:0030612arsenate reductase (thioredoxin) activity0.00998877227087679
GO:0030054cell junction0.0162270093294472
GO:0030057desmosome0.0166370106841642
GO:0022610biological adhesion0.0251358992688552
GO:0007155cell adhesion0.0251358992688552
GO:0030855epithelial cell differentiation0.0298925102388902
GO:0014704intercalated disc0.0339436361587461
GO:0005923tight junction0.0483017148894322



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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