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MCL coexpression mm9:1064: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0045944;positive regulation of transcription from RNA polymerase II promoter;0.0294313341529811;16658,17132!GO:0046983;protein dimerization activity;0.0294313341529811;16658,17132!GO:0045893;positive regulation of transcription, DNA-dependent;0.0294313341529811;16658,17132!GO:0045941;positive regulation of transcription;0.0294313341529811;16658,17132!GO:0045935;positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0294313341529811;16658,17132!GO:0007379;segment specification;0.0294313341529811;16658!GO:0031325;positive regulation of cellular metabolic process;0.0294313341529811;16658,17132!GO:0009893;positive regulation of metabolic process;0.0294313341529811;16658,17132!GO:0006357;regulation of transcription from RNA polymerase II promoter;0.0294313341529811;16658,17132!GO:0006366;transcription from RNA polymerase II promoter;0.0304484986597984;16658,17132!GO:0043565;sequence-specific DNA binding;0.0304484986597984;16658,17132!GO:0007585;respiratory gaseous exchange;0.0363785067069221;16658!
|gostat_on_MCL_coexpression=GO:0045944;positive regulation of transcription from RNA polymerase II promoter;0.0294313341529811;16658,17132!GO:0046983;protein dimerization activity;0.0294313341529811;16658,17132!GO:0045893;positive regulation of transcription, DNA-dependent;0.0294313341529811;16658,17132!GO:0045941;positive regulation of transcription;0.0294313341529811;16658,17132!GO:0045935;positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0294313341529811;16658,17132!GO:0007379;segment specification;0.0294313341529811;16658!GO:0031325;positive regulation of cellular metabolic process;0.0294313341529811;16658,17132!GO:0009893;positive regulation of metabolic process;0.0294313341529811;16658,17132!GO:0006357;regulation of transcription from RNA polymerase II promoter;0.0294313341529811;16658,17132!GO:0006366;transcription from RNA polymerase II promoter;0.0304484986597984;16658,17132!GO:0043565;sequence-specific DNA binding;0.0304484986597984;16658,17132!GO:0007585;respiratory gaseous exchange;0.0363785067069221;16658!
}}
}}

Revision as of 12:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:121563707..121563718,+p3@Metrnl
Mm9::chr11:121563732..121563748,+p1@Metrnl
Mm9::chr11:121563767..121563781,+p2@Metrnl
Mm9::chr19:4269140..4269200,-p1@Ssh3
Mm9::chr2:160192793..160192809,-p1@Mafb
Mm9::chr4:141430794..141430868,-p1@Efhd2
Mm9::chr8:118231350..118231385,-p7@Maf


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:0045944positive regulation of transcription from RNA polymerase II promoter0.0294313341529811
GO:0046983protein dimerization activity0.0294313341529811
GO:0045893positive regulation of transcription, DNA-dependent0.0294313341529811
GO:0045941positive regulation of transcription0.0294313341529811
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0294313341529811
GO:0007379segment specification0.0294313341529811
GO:0031325positive regulation of cellular metabolic process0.0294313341529811
GO:0009893positive regulation of metabolic process0.0294313341529811
GO:0006357regulation of transcription from RNA polymerase II promoter0.0294313341529811
GO:0006366transcription from RNA polymerase II promoter0.0304484986597984
GO:0043565sequence-specific DNA binding0.0304484986597984
GO:0007585respiratory gaseous exchange0.0363785067069221



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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