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MCL coexpression mm9:1509: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0030814;regulation of cAMP metabolic process;0.0188963425644224;21858!GO:0008191;metalloendopeptidase inhibitor activity;0.0188963425644224;21858!GO:0030799;regulation of cyclic nucleotide metabolic process;0.0188963425644224;21858!GO:0006140;regulation of nucleotide metabolic process;0.0188963425644224;21858!GO:0043408;regulation of MAPKKK cascade;0.0237475910157745;21858!GO:0046058;cAMP metabolic process;0.0237475910157745;21858!GO:0005178;integrin binding;0.0237475910157745;21858!GO:0045664;regulation of neuron differentiation;0.0254981794352035;21858!GO:0009187;cyclic nucleotide metabolic process;0.031050996165266;21858!GO:0032403;protein complex binding;0.0369972524037819;21858!GO:0005604;basement membrane;0.0425419607155802;21858!
|gostat_on_MCL_coexpression=GO:0030814;regulation of cAMP metabolic process;0.0188963425644224;21858!GO:0008191;metalloendopeptidase inhibitor activity;0.0188963425644224;21858!GO:0030799;regulation of cyclic nucleotide metabolic process;0.0188963425644224;21858!GO:0006140;regulation of nucleotide metabolic process;0.0188963425644224;21858!GO:0043408;regulation of MAPKKK cascade;0.0237475910157745;21858!GO:0046058;cAMP metabolic process;0.0237475910157745;21858!GO:0005178;integrin binding;0.0237475910157745;21858!GO:0045664;regulation of neuron differentiation;0.0254981794352035;21858!GO:0009187;cyclic nucleotide metabolic process;0.031050996165266;21858!GO:0032403;protein complex binding;0.0369972524037819;21858!GO:0005604;basement membrane;0.0425419607155802;21858!
}}
}}

Revision as of 12:58, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:3494819..3494821,-p@chr10:3494819..3494821
-
Mm9::chr11:118216810..118216811,-p3@Timp2
Mm9::chr4:12833932..12833964,+p1@Gm11818
Mm9::chrX:22862571..22862580,-p7@Klhl13
Mm9::chrX:22862658..22862704,-p6@Klhl13


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:0030814regulation of cAMP metabolic process0.0188963425644224
GO:0008191metalloendopeptidase inhibitor activity0.0188963425644224
GO:0030799regulation of cyclic nucleotide metabolic process0.0188963425644224
GO:0006140regulation of nucleotide metabolic process0.0188963425644224
GO:0043408regulation of MAPKKK cascade0.0237475910157745
GO:0046058cAMP metabolic process0.0237475910157745
GO:0005178integrin binding0.0237475910157745
GO:0045664regulation of neuron differentiation0.0254981794352035
GO:0009187cyclic nucleotide metabolic process0.031050996165266
GO:0032403protein complex binding0.0369972524037819
GO:0005604basement membrane0.0425419607155802



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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