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MCL coexpression mm9:2676: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0042162;telomeric DNA binding;0.0165323101421702;21750!GO:0007004;telomere maintenance via telomerase;0.0165323101421702;21750!GO:0044427;chromosomal part;0.0165323101421702;21750,66923!GO:0006278;RNA-dependent DNA replication;0.0165323101421702;21750!GO:0005694;chromosome;0.0165323101421702;21750,66923!GO:0032200;telomere organization and biogenesis;0.0243021189462064;21750!GO:0000723;telomere maintenance;0.0243021189462064;21750!GO:0000776;kinetochore;0.0243021189462064;66923!GO:0000781;chromosome, telomeric region;0.0243021189462064;21750!GO:0003676;nucleic acid binding;0.0243831369928699;21750,104625,66923!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0273264003957744;21750,104625,66923!GO:0001890;placenta development;0.0273264003957744;66923!GO:0004527;exonuclease activity;0.041999149025466;104625!GO:0000775;chromosome, pericentric region;0.0493230110171752;66923!GO:0005634;nucleus;0.0493230110171752;21750,104625,66923!
|gostat_on_MCL_coexpression=GO:0042162;telomeric DNA binding;0.0165323101421702;21750!GO:0007004;telomere maintenance via telomerase;0.0165323101421702;21750!GO:0044427;chromosomal part;0.0165323101421702;21750,66923!GO:0006278;RNA-dependent DNA replication;0.0165323101421702;21750!GO:0005694;chromosome;0.0165323101421702;21750,66923!GO:0032200;telomere organization and biogenesis;0.0243021189462064;21750!GO:0000723;telomere maintenance;0.0243021189462064;21750!GO:0000776;kinetochore;0.0243021189462064;66923!GO:0000781;chromosome, telomeric region;0.0243021189462064;21750!GO:0003676;nucleic acid binding;0.0243831369928699;21750,104625,66923!GO:0006139;nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;0.0273264003957744;21750,104625,66923!GO:0001890;placenta development;0.0273264003957744;66923!GO:0004527;exonuclease activity;0.041999149025466;104625!GO:0000775;chromosome, pericentric region;0.0493230110171752;66923!GO:0005634;nucleus;0.0493230110171752;21750,104625,66923!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001048!5.00e-09!134;UBERON:0000153!6.86e-09!43;UBERON:0007811!3.61e-07!36;UBERON:0004177!5.89e-07!29;UBERON:0005057!5.89e-07!29
}}
}}

Revision as of 18:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:49526176..49526228,-p1@Cnot6
Mm9::chr14:31832369..31832400,+p3@Pbrm1
Mm9::chr8:109620410..109620462,-p1@Terf2


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:0042162telomeric DNA binding0.0165323101421702
GO:0007004telomere maintenance via telomerase0.0165323101421702
GO:0044427chromosomal part0.0165323101421702
GO:0006278RNA-dependent DNA replication0.0165323101421702
GO:0005694chromosome0.0165323101421702
GO:0032200telomere organization and biogenesis0.0243021189462064
GO:0000723telomere maintenance0.0243021189462064
GO:0000776kinetochore0.0243021189462064
GO:0000781chromosome, telomeric region0.0243021189462064
GO:0003676nucleic acid binding0.0243831369928699
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0273264003957744
GO:0001890placenta development0.0273264003957744
GO:0004527exonuclease activity0.041999149025466
GO:0000775chromosome, pericentric region0.0493230110171752
GO:0005634nucleus0.0493230110171752



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
primordium5.00e-09134
anterior region of body6.86e-0943
craniocervical region3.61e-0736
hemopoietic organ5.89e-0729
immune organ5.89e-0729


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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