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MCL coexpression mm9:509: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0003676;nucleic acid binding;0.000132674954062797;66882,73681,72567,53379,70439,67958,20823,51796,209003,320586!GO:0003723;RNA binding;0.00116200650109324;53379,20823,67958,51796,209003!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.00116200650109324;66882,72567,66580,53379,20823,67958,51796,320586,24061!GO:0016070;RNA metabolic process;0.00116200650109324;66882,72567,66580,53379,67958,20823,51796,320586!GO:0006396;RNA processing;0.00217965357397562;53379,20823,67958,51796!GO:0010467;gene expression;0.00289657235911795;66882,72567,66580,53379,67958,20823,51796,320586!GO:0044237;cellular metabolic process;0.00473553114394023;66882,73681,72567,66580,53379,20823,67958,51796,228005,320586,24061!GO:0043283;biopolymer metabolic process;0.00655461103996711;66882,72567,66580,53379,20823,67958,51796,320586,24061!GO:0043170;macromolecule metabolic process;0.00767170497479986;66882,72567,66580,53379,20823,67958,51796,228005,320586,24061!GO:0044238;primary metabolic process;0.0244127424594363;66882,72567,66580,53379,20823,67958,51796,228005,320586,24061!GO:0030529;ribonucleoprotein complex;0.0418820546813995;53379,20823,51796!
|gostat_on_MCL_coexpression=GO:0003676;nucleic acid binding;0.000132674954062797;66882,73681,72567,53379,70439,67958,20823,51796,209003,320586!GO:0003723;RNA binding;0.00116200650109324;53379,20823,67958,51796,209003!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.00116200650109324;66882,72567,66580,53379,20823,67958,51796,320586,24061!GO:0016070;RNA metabolic process;0.00116200650109324;66882,72567,66580,53379,67958,20823,51796,320586!GO:0006396;RNA processing;0.00217965357397562;53379,20823,67958,51796!GO:0010467;gene expression;0.00289657235911795;66882,72567,66580,53379,67958,20823,51796,320586!GO:0044237;cellular metabolic process;0.00473553114394023;66882,73681,72567,66580,53379,20823,67958,51796,228005,320586,24061!GO:0043283;biopolymer metabolic process;0.00655461103996711;66882,72567,66580,53379,20823,67958,51796,320586,24061!GO:0043170;macromolecule metabolic process;0.00767170497479986;66882,72567,66580,53379,20823,67958,51796,228005,320586,24061!GO:0044238;primary metabolic process;0.0244127424594363;66882,72567,66580,53379,20823,67958,51796,228005,320586,24061!GO:0030529;ribonucleoprotein complex;0.0418820546813995;53379,20823,51796!
}}
}}

Revision as of 12:42, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:20032267..20032298,+p1@Bclaf1
Mm9::chr10:30320468..30320507,-p1@Trmt11
Mm9::chr11:83286581..83286625,+p1@Taf15
Mm9::chr16:98303146..98303177,-p1@A630089N07Rik
Mm9::chr1:58449963..58449991,+p1@Bzw1
Mm9::chr2:139996264..139996305,-p1@Esf1
Mm9::chr2:69560854..69560897,+p1@Ppig
Mm9::chr2:69699642..69699692,+p1@Ssb
Mm9::chr2:75497310..75497323,+p1@Gm11847
p1@Hnrnpa3
p1@LOC100504930
p1@LOC100505153
p1@LOC100505318
Mm9::chr4:134909041..134909072,-p1@Srrm1
Mm9::chr6:51419835..51419853,-p1@Hnrnpa2b1
p1@LOC100045191
Mm9::chr9:95412276..95412311,-p1@2610101N10Rik
Mm9::chrX:148450978..148451061,+p1@Smc1a
Mm9::chrX:46048227..46048272,+p1@Rbmx2


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:0003676nucleic acid binding0.000132674954062797
GO:0003723RNA binding0.00116200650109324
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.00116200650109324
GO:0016070RNA metabolic process0.00116200650109324
GO:0006396RNA processing0.00217965357397562
GO:0010467gene expression0.00289657235911795
GO:0044237cellular metabolic process0.00473553114394023
GO:0043283biopolymer metabolic process0.00655461103996711
GO:0043170macromolecule metabolic process0.00767170497479986
GO:0044238primary metabolic process0.0244127424594363
GO:0030529ribonucleoprotein complex0.0418820546813995



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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