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MCL coexpression mm9:1230: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0015794;glycerol-3-phosphate transport;0.00633946670214681;224674!GO:0015168;glycerol transmembrane transporter activity;0.00633946670214681;224674!GO:0015665;alcohol transmembrane transporter activity;0.00633946670214681;224674!GO:0015793;glycerol transport;0.00633946670214681;224674!GO:0015169;glycerol-3-phosphate transmembrane transporter activity;0.00633946670214681;224674!GO:0015166;polyol transmembrane transporter activity;0.00633946670214681;224674!GO:0006127;glycerophosphate shuttle;0.00633946670214681;224674!GO:0021995;neuropore closure;0.00887428085907578;234366!GO:0015791;polyol transport;0.00887428085907578;224674!GO:0021506;anterior neuropore closure;0.00887428085907578;234366!GO:0001842;neural fold formation;0.0120999660568884;234366!GO:0010172;embryonic body morphogenesis;0.0147872268848731;234366!GO:0010171;body morphogenesis;0.0170603152436236;234366!GO:0006072;glycerol-3-phosphate metabolic process;0.0190079824906938;224674!GO:0007205;protein kinase C activation;0.0332421055492497;13139!GO:0004143;diacylglycerol kinase activity;0.0332421055492497;13139!GO:0006071;glycerol metabolic process;0.049204409131596;224674!GO:0019751;polyol metabolic process;0.049204409131596;224674!
|gostat_on_MCL_coexpression=GO:0015794;glycerol-3-phosphate transport;0.00633946670214681;224674!GO:0015168;glycerol transmembrane transporter activity;0.00633946670214681;224674!GO:0015665;alcohol transmembrane transporter activity;0.00633946670214681;224674!GO:0015793;glycerol transport;0.00633946670214681;224674!GO:0015169;glycerol-3-phosphate transmembrane transporter activity;0.00633946670214681;224674!GO:0015166;polyol transmembrane transporter activity;0.00633946670214681;224674!GO:0006127;glycerophosphate shuttle;0.00633946670214681;224674!GO:0021995;neuropore closure;0.00887428085907578;234366!GO:0015791;polyol transport;0.00887428085907578;224674!GO:0021506;anterior neuropore closure;0.00887428085907578;234366!GO:0001842;neural fold formation;0.0120999660568884;234366!GO:0010172;embryonic body morphogenesis;0.0147872268848731;234366!GO:0010171;body morphogenesis;0.0170603152436236;234366!GO:0006072;glycerol-3-phosphate metabolic process;0.0190079824906938;224674!GO:0007205;protein kinase C activation;0.0332421055492497;13139!GO:0004143;diacylglycerol kinase activity;0.0332421055492497;13139!GO:0006071;glycerol metabolic process;0.049204409131596;224674!GO:0019751;polyol metabolic process;0.049204409131596;224674!
|ontology_enrichment_celltype=CL:0000838!1.02e-07!12;CL:0000084!2.97e-07!11;CL:0000827!2.97e-07!11;CL:0000791!7.67e-07!9;CL:0000789!7.67e-07!9;CL:0002420!7.67e-07!9;CL:0002419!7.67e-07!9;CL:0000790!7.67e-07!9
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!2.70e-23!118;UBERON:0000925!2.70e-23!118;UBERON:0006595!2.70e-23!118;UBERON:0001007!7.99e-23!116;UBERON:0001555!7.99e-23!116;UBERON:0007026!7.99e-23!116;UBERON:0004921!1.20e-21!114;UBERON:0005409!4.93e-14!47;UBERON:0000160!7.78e-14!31;UBERON:0005911!4.49e-11!69;UBERON:0003929!1.18e-10!55;UBERON:0004923!4.36e-10!24;UBERON:0000344!5.72e-10!15;UBERON:0001242!6.29e-09!13;UBERON:0000060!6.29e-09!13;UBERON:0001262!6.29e-09!13;UBERON:0004786!6.29e-09!13;UBERON:0001041!1.71e-08!80;UBERON:0000490!2.06e-08!66;UBERON:0000077!7.70e-08!35;UBERON:0002193!4.26e-07!48;UBERON:0002405!4.26e-07!48;UBERON:0004177!7.47e-07!29;UBERON:0005057!7.47e-07!29
}}
}}

Revision as of 16:33, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128181040..128181051,-p6@Dgka
Mm9::chr12:4914035..4914063,-p3@Ubxn2a
Mm9::chr13:39052367..39052408,-p1@Slc35b3
Mm9::chr14:47896665..47896684,+p2@Socs4
Mm9::chr17:31433136..31433198,+p1@Slc37a1
Mm9::chr8:72519989..72520007,-p5@Gatad2a


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:0015794glycerol-3-phosphate transport0.00633946670214681
GO:0015168glycerol transmembrane transporter activity0.00633946670214681
GO:0015665alcohol transmembrane transporter activity0.00633946670214681
GO:0015793glycerol transport0.00633946670214681
GO:0015169glycerol-3-phosphate transmembrane transporter activity0.00633946670214681
GO:0015166polyol transmembrane transporter activity0.00633946670214681
GO:0006127glycerophosphate shuttle0.00633946670214681
GO:0021995neuropore closure0.00887428085907578
GO:0015791polyol transport0.00887428085907578
GO:0021506anterior neuropore closure0.00887428085907578
GO:0001842neural fold formation0.0120999660568884
GO:0010172embryonic body morphogenesis0.0147872268848731
GO:0010171body morphogenesis0.0170603152436236
GO:0006072glycerol-3-phosphate metabolic process0.0190079824906938
GO:0007205protein kinase C activation0.0332421055492497
GO:0004143diacylglycerol kinase activity0.0332421055492497
GO:0006071glycerol metabolic process0.049204409131596
GO:0019751polyol metabolic process0.049204409131596



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
lymphoid lineage restricted progenitor cell1.02e-0712
T cell2.97e-0711
pro-T cell2.97e-0711
mature alpha-beta T cell7.67e-079
alpha-beta T cell7.67e-079
immature T cell7.67e-079
mature T cell7.67e-079
immature alpha-beta T cell7.67e-079

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure2.70e-23118
endoderm2.70e-23118
presumptive endoderm2.70e-23118
digestive system7.99e-23116
digestive tract7.99e-23116
primitive gut7.99e-23116
subdivision of digestive tract1.20e-21114
gastrointestinal system4.93e-1447
intestine7.78e-1431
endo-epithelium4.49e-1169
gut epithelium1.18e-1055
organ component layer4.36e-1024
mucosa5.72e-1015
intestinal mucosa6.29e-0913
anatomical wall6.29e-0913
wall of intestine6.29e-0913
gastrointestinal system mucosa6.29e-0913
foregut1.71e-0880
unilaminar epithelium2.06e-0866
mixed endoderm/mesoderm-derived structure7.70e-0835
hemolymphoid system4.26e-0748
immune system4.26e-0748
hemopoietic organ7.47e-0729
immune organ7.47e-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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