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MCL coexpression mm9:2534: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0003735;structural constituent of ribosome;0.00178336575620057;269261,67945!GO:0005840;ribosome;0.00178336575620057;269261,67945!GO:0006412;translation;0.00661201460385156;269261,67945!GO:0030529;ribonucleoprotein complex;0.00661201460385156;269261,67945!GO:0009059;macromolecule biosynthetic process;0.0110478718420932;269261,67945!GO:0044249;cellular biosynthetic process;0.0159034677069647;269261,67945!GO:0009058;biosynthetic process;0.0249673521401245;269261,67945!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.0288907953959852;269261!GO:0043232;intracellular non-membrane-bound organelle;0.0288907953959852;269261,67945!GO:0043228;non-membrane-bound organelle;0.0288907953959852;269261,67945!GO:0044445;cytosolic part;0.0404655777939637;269261!GO:0032991;macromolecular complex;0.0404655777939637;269261,67945!GO:0005730;nucleolus;0.0404655777939637;269261!GO:0042254;ribosome biogenesis and assembly;0.0435247295931946;269261!
|gostat_on_MCL_coexpression=GO:0003735;structural constituent of ribosome;0.00178336575620057;269261,67945!GO:0005840;ribosome;0.00178336575620057;269261,67945!GO:0006412;translation;0.00661201460385156;269261,67945!GO:0030529;ribonucleoprotein complex;0.00661201460385156;269261,67945!GO:0009059;macromolecule biosynthetic process;0.0110478718420932;269261,67945!GO:0044249;cellular biosynthetic process;0.0159034677069647;269261,67945!GO:0009058;biosynthetic process;0.0249673521401245;269261,67945!GO:0005830;cytosolic ribosome (sensu Eukaryota);0.0288907953959852;269261!GO:0043232;intracellular non-membrane-bound organelle;0.0288907953959852;269261,67945!GO:0043228;non-membrane-bound organelle;0.0288907953959852;269261,67945!GO:0044445;cytosolic part;0.0404655777939637;269261!GO:0032991;macromolecular complex;0.0404655777939637;269261,67945!GO:0005730;nucleolus;0.0404655777939637;269261!GO:0042254;ribosome biogenesis and assembly;0.0435247295931946;269261!
}}
}}

Revision as of 13:14, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127986159..127986177,-p1@Rpl41
Mm9::chr14:19103467..19103505,-p1@Gm10224
p1@Gm4581
p1@LOC634785
p1@Rpl15
Mm9::chr2:32817221..32817234,+p2@Rpl12


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:0003735structural constituent of ribosome0.00178336575620057
GO:0005840ribosome0.00178336575620057
GO:0006412translation0.00661201460385156
GO:0030529ribonucleoprotein complex0.00661201460385156
GO:0009059macromolecule biosynthetic process0.0110478718420932
GO:0044249cellular biosynthetic process0.0159034677069647
GO:0009058biosynthetic process0.0249673521401245
GO:0005830cytosolic ribosome (sensu Eukaryota)0.0288907953959852
GO:0043232intracellular non-membrane-bound organelle0.0288907953959852
GO:0043228non-membrane-bound organelle0.0288907953959852
GO:0044445cytosolic part0.0404655777939637
GO:0032991macromolecular complex0.0404655777939637
GO:0005730nucleolus0.0404655777939637
GO:0042254ribosome biogenesis and assembly0.0435247295931946



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}}}