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MCL coexpression mm9:3136: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0031575;G1/S transition checkpoint;0.0175270423785947;19290!GO:0005662;DNA replication factor A complex;0.0175270423785947;19290!GO:0046332;SMAD binding;0.0175270423785947;19290!GO:0030894;replisome;0.0175270423785947;19290!GO:0043601;nuclear replisome;0.0175270423785947;19290!GO:0043596;nuclear replication fork;0.0175270423785947;19290!GO:0007093;mitotic cell cycle checkpoint;0.0195285274998199;19290!GO:0003697;single-stranded DNA binding;0.0236504852732322;19290!GO:0003690;double-stranded DNA binding;0.0236504852732322;19290!GO:0005657;replication fork;0.0236504852732322;19290!GO:0000075;cell cycle checkpoint;0.0236504852732322;19290!GO:0007088;regulation of mitosis;0.0236504852732322;19290!GO:0043566;structure-specific DNA binding;0.0387887096421998;19290!
|gostat_on_MCL_coexpression=GO:0031575;G1/S transition checkpoint;0.0175270423785947;19290!GO:0005662;DNA replication factor A complex;0.0175270423785947;19290!GO:0046332;SMAD binding;0.0175270423785947;19290!GO:0030894;replisome;0.0175270423785947;19290!GO:0043601;nuclear replisome;0.0175270423785947;19290!GO:0043596;nuclear replication fork;0.0175270423785947;19290!GO:0007093;mitotic cell cycle checkpoint;0.0195285274998199;19290!GO:0003697;single-stranded DNA binding;0.0236504852732322;19290!GO:0003690;double-stranded DNA binding;0.0236504852732322;19290!GO:0005657;replication fork;0.0236504852732322;19290!GO:0000075;cell cycle checkpoint;0.0236504852732322;19290!GO:0007088;regulation of mitosis;0.0236504852732322;19290!GO:0043566;structure-specific DNA binding;0.0387887096421998;19290!
}}
}}

Revision as of 13:24, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr18:36446729..36446815,+p@chr18:36446729..36446815
+
Mm9::chr19:56896651..56896710,-p1@A630007B06Rik
Mm9::chr4:115410359..115410415,+p1@4732418C07Rik


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:0031575G1/S transition checkpoint0.0175270423785947
GO:0005662DNA replication factor A complex0.0175270423785947
GO:0046332SMAD binding0.0175270423785947
GO:0030894replisome0.0175270423785947
GO:0043601nuclear replisome0.0175270423785947
GO:0043596nuclear replication fork0.0175270423785947
GO:0007093mitotic cell cycle checkpoint0.0195285274998199
GO:0003697single-stranded DNA binding0.0236504852732322
GO:0003690double-stranded DNA binding0.0236504852732322
GO:0005657replication fork0.0236504852732322
GO:0000075cell cycle checkpoint0.0236504852732322
GO:0007088regulation of mitosis0.0236504852732322
GO:0043566structure-specific DNA binding0.0387887096421998



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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