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MCL coexpression mm9:1232: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0015031;protein transport;0.0219065662257657;74330,75608,19345!GO:0045184;establishment of protein localization;0.0219065662257657;74330,75608,19345!GO:0008104;protein localization;0.0219065662257657;74330,75608,19345!GO:0033036;macromolecule localization;0.0219065662257657;74330,75608,19345!GO:0007032;endosome organization and biogenesis;0.0295639229480919;19345!
|gostat_on_MCL_coexpression=GO:0015031;protein transport;0.0219065662257657;74330,75608,19345!GO:0045184;establishment of protein localization;0.0219065662257657;74330,75608,19345!GO:0008104;protein localization;0.0219065662257657;74330,75608,19345!GO:0033036;macromolecule localization;0.0219065662257657;74330,75608,19345!GO:0007032;endosome organization and biogenesis;0.0295639229480919;19345!
|ontology_enrichment_celltype=CL:0002371!3.79e-16!118;CL:0000548!1.85e-14!115;CL:0000255!1.85e-14!115;CL:0002321!6.01e-11!70;CL:0000117!1.40e-08!23;CL:0000337!1.40e-08!23;CL:0000723!9.48e-08!91;CL:0000048!9.48e-08!91;CL:0000034!1.18e-07!97;CL:0000055!4.41e-07!49
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000344!9.13e-07!15
}}
}}

Revision as of 16:33, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128242585..128242646,+p2@Dnajc14
Mm9::chr11:100599467..100599526,-p1@Rab5c
Mm9::chr11:68873210..68873247,+p2@2310047M10Rik
Mm9::chr2:154482695..154482844,+p1@Chmp4b
Mm9::chr7:20093670..20093726,-p1@Bloc1s3
Mm9::chr7:31435142..31435201,-p1@Rbm42


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:0015031protein transport0.0219065662257657
GO:0045184establishment of protein localization0.0219065662257657
GO:0008104protein localization0.0219065662257657
GO:0033036macromolecule localization0.0219065662257657
GO:0007032endosome organization and biogenesis0.0295639229480919



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><br>

Cell Type
Ontology termp-valuen
somatic cell3.79e-16118
animal cell1.85e-14115
eukaryotic cell1.85e-14115
embryonic cell6.01e-1170
CNS neuron (sensu Vertebrata)1.40e-0823
neuroblast (sensu Vertebrata)1.40e-0823
somatic stem cell9.48e-0891
multi fate stem cell9.48e-0891
stem cell1.18e-0797
non-terminally differentiated cell4.41e-0749

Uber Anatomy
Ontology termp-valuen
mucosa9.13e-0715


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)

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