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MCL coexpression mm9:809: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0030529;ribonucleoprotein complex;0.000977227371540093;68611,20090,66448,68565!GO:0003735;structural constituent of ribosome;0.000977227371540093;20090,66448,68565!GO:0005840;ribosome;0.000977227371540093;20090,66448,68565!GO:0005739;mitochondrion;0.00511310553386146;68611,66169,66448,68565!GO:0033279;ribosomal subunit;0.00511310553386146;20090,66448!GO:0032991;macromolecular complex;0.00511310553386146;68611,20022,20090,66448,68565!GO:0006412;translation;0.00723930261923568;20090,66448,68565!GO:0005666;DNA-directed RNA polymerase III complex;0.0117906437470871;20022!GO:0009059;macromolecule biosynthetic process;0.0184646870897222;20090,66448,68565!GO:0044444;cytoplasmic part;0.02519769300812;68611,20090,66169,66448,68565!GO:0044249;cellular biosynthetic process;0.033176034383354;20090,66448,68565!GO:0000428;DNA-directed RNA polymerase complex;0.0357435504572228;20022!GO:0055029;nuclear DNA-directed RNA polymerase complex;0.0357435504572228;20022!GO:0015450;P-P-bond-hydrolysis-driven protein transmembrane transporter activity;0.0357435504572228;66169!GO:0022884;macromolecule transmembrane transporter activity;0.0357435504572228;66169!GO:0030880;RNA polymerase complex;0.0357435504572228;20022!GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.0357435504572228;20090!GO:0044429;mitochondrial part;0.0357435504572228;66169,66448!GO:0044446;intracellular organelle part;0.0357435504572228;20022,20090,66169,66448!GO:0044422;organelle part;0.0357435504572228;20022,20090,66169,66448!GO:0000315;organellar large ribosomal subunit;0.0357435504572228;66448!GO:0005762;mitochondrial large ribosomal subunit;0.0357435504572228;66448!GO:0009058;biosynthetic process;0.0357435504572228;20090,66448,68565!GO:0005741;mitochondrial outer membrane;0.0357435504572228;66169!GO:0008320;protein transmembrane transporter activity;0.0357435504572228;66169!GO:0031968;organelle outer membrane;0.0397758379675364;66169!GO:0019843;rRNA binding;0.0400371094597319;66448!GO:0010467;gene expression;0.0473908350928618;20022,20090,66448,68565!GO:0015935;small ribosomal subunit;0.0485648897514198;20090!
|gostat_on_MCL_coexpression=GO:0030529;ribonucleoprotein complex;0.000977227371540093;68611,20090,66448,68565!GO:0003735;structural constituent of ribosome;0.000977227371540093;20090,66448,68565!GO:0005840;ribosome;0.000977227371540093;20090,66448,68565!GO:0005739;mitochondrion;0.00511310553386146;68611,66169,66448,68565!GO:0033279;ribosomal subunit;0.00511310553386146;20090,66448!GO:0032991;macromolecular complex;0.00511310553386146;68611,20022,20090,66448,68565!GO:0006412;translation;0.00723930261923568;20090,66448,68565!GO:0005666;DNA-directed RNA polymerase III complex;0.0117906437470871;20022!GO:0009059;macromolecule biosynthetic process;0.0184646870897222;20090,66448,68565!GO:0044444;cytoplasmic part;0.02519769300812;68611,20090,66169,66448,68565!GO:0044249;cellular biosynthetic process;0.033176034383354;20090,66448,68565!GO:0000428;DNA-directed RNA polymerase complex;0.0357435504572228;20022!GO:0055029;nuclear DNA-directed RNA polymerase complex;0.0357435504572228;20022!GO:0015450;P-P-bond-hydrolysis-driven protein transmembrane transporter activity;0.0357435504572228;66169!GO:0022884;macromolecule transmembrane transporter activity;0.0357435504572228;66169!GO:0030880;RNA polymerase complex;0.0357435504572228;20022!GO:0005843;cytosolic small ribosomal subunit (sensu Eukaryota);0.0357435504572228;20090!GO:0044429;mitochondrial part;0.0357435504572228;66169,66448!GO:0044446;intracellular organelle part;0.0357435504572228;20022,20090,66169,66448!GO:0044422;organelle part;0.0357435504572228;20022,20090,66169,66448!GO:0000315;organellar large ribosomal subunit;0.0357435504572228;66448!GO:0005762;mitochondrial large ribosomal subunit;0.0357435504572228;66448!GO:0009058;biosynthetic process;0.0357435504572228;20090,66448,68565!GO:0005741;mitochondrial outer membrane;0.0357435504572228;66169!GO:0008320;protein transmembrane transporter activity;0.0357435504572228;66169!GO:0031968;organelle outer membrane;0.0397758379675364;66169!GO:0019843;rRNA binding;0.0400371094597319;66448!GO:0010467;gene expression;0.0473908350928618;20022,20090,66448,68565!GO:0015935;small ribosomal subunit;0.0485648897514198;20090!
}}
}}

Revision as of 12:47, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:70260096..70260120,-p1@Gm10059
p1@Gm14303
p1@Gm2581
p1@Rps29
Mm9::chr17:26260459..26260499,+p1@Mrpl28
Mm9::chr17:46247931..46247971,+p1@Mrps18a
Mm9::chr19:10278691..10278727,+p1@1810006K21Rik
Mm9::chr3:96001503..96001557,-p1@Bola1
Mm9::chr4:155177709..155177749,+p1@Mrpl20
Mm9::chr5:136592548..136592610,+p1@Polr2j
Mm9::chr5:23349903..23349969,-p1@Tomm7
Mm9::chr9:61762345..61762381,-p1@Gm11942
p1@Gm13777
p1@Rplp1


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:0030529ribonucleoprotein complex0.000977227371540093
GO:0003735structural constituent of ribosome0.000977227371540093
GO:0005840ribosome0.000977227371540093
GO:0005739mitochondrion0.00511310553386146
GO:0033279ribosomal subunit0.00511310553386146
GO:0032991macromolecular complex0.00511310553386146
GO:0006412translation0.00723930261923568
GO:0005666DNA-directed RNA polymerase III complex0.0117906437470871
GO:0009059macromolecule biosynthetic process0.0184646870897222
GO:0044444cytoplasmic part0.02519769300812
GO:0044249cellular biosynthetic process0.033176034383354
GO:0000428DNA-directed RNA polymerase complex0.0357435504572228
GO:0055029nuclear DNA-directed RNA polymerase complex0.0357435504572228
GO:0015450P-P-bond-hydrolysis-driven protein transmembrane transporter activity0.0357435504572228
GO:0022884macromolecule transmembrane transporter activity0.0357435504572228
GO:0030880RNA polymerase complex0.0357435504572228
GO:0005843cytosolic small ribosomal subunit (sensu Eukaryota)0.0357435504572228
GO:0044429mitochondrial part0.0357435504572228
GO:0044446intracellular organelle part0.0357435504572228
GO:0044422organelle part0.0357435504572228
GO:0000315organellar large ribosomal subunit0.0357435504572228
GO:0005762mitochondrial large ribosomal subunit0.0357435504572228
GO:0009058biosynthetic process0.0357435504572228
GO:0005741mitochondrial outer membrane0.0357435504572228
GO:0008320protein transmembrane transporter activity0.0357435504572228
GO:0031968organelle outer membrane0.0397758379675364
GO:0019843rRNA binding0.0400371094597319
GO:0010467gene expression0.0473908350928618
GO:0015935small ribosomal subunit0.0485648897514198



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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