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MCL coexpression mm9:2081: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0016331;morphogenesis of embryonic epithelium;0.0402673533117844;231413!GO:0009952;anterior/posterior pattern formation;0.0402673533117844;231413!GO:0002009;morphogenesis of an epithelium;0.0402673533117844;231413!GO:0003002;regionalization;0.0402673533117844;231413!GO:0048598;embryonic morphogenesis;0.0427327014737304;231413!GO:0007389;pattern specification process;0.0427327014737304;231413!
|gostat_on_MCL_coexpression=GO:0016331;morphogenesis of embryonic epithelium;0.0402673533117844;231413!GO:0009952;anterior/posterior pattern formation;0.0402673533117844;231413!GO:0002009;morphogenesis of an epithelium;0.0402673533117844;231413!GO:0003002;regionalization;0.0402673533117844;231413!GO:0048598;embryonic morphogenesis;0.0427327014737304;231413!GO:0007389;pattern specification process;0.0427327014737304;231413!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005177!6.09e-16!79;UBERON:0003914!1.68e-14!47;UBERON:0002100!4.58e-14!90;UBERON:0000466!1.80e-13!79;UBERON:0009569!2.75e-12!66;UBERON:0003104!6.12e-10!61;UBERON:0009142!6.12e-10!61;UBERON:0005172!1.35e-08!49;UBERON:0005173!1.35e-08!49;UBERON:0002417!1.35e-08!49;UBERON:0000916!1.35e-08!49;UBERON:0003103!1.36e-08!43;UBERON:0002365!2.98e-08!25;UBERON:0002330!2.98e-08!25;UBERON:0002107!7.84e-08!22;UBERON:0007499!7.84e-08!22;UBERON:0006925!7.84e-08!22;UBERON:0009497!7.84e-08!22;UBERON:0000015!7.84e-08!22;UBERON:0002423!7.84e-08!22;UBERON:0006235!7.84e-08!22;UBERON:0008835!7.84e-08!22;UBERON:0003894!7.84e-08!22;UBERON:0004161!7.84e-08!22;UBERON:0008836!7.84e-08!22;UBERON:0009854!2.34e-07!23;UBERON:0009856!2.34e-07!23;UBERON:0004535!2.75e-07!23;UBERON:0001009!2.75e-07!23;UBERON:0007100!3.90e-07!18;UBERON:0000948!3.90e-07!18;UBERON:0005498!3.90e-07!18;UBERON:0004140!3.90e-07!18;UBERON:0009881!3.90e-07!18;UBERON:0004141!3.90e-07!18;UBERON:0003084!3.90e-07!18;UBERON:0007005!3.90e-07!18;UBERON:0004139!3.90e-07!18;UBERON:0004291!3.90e-07!18;UBERON:0000464!6.38e-07!57;UBERON:0001048!6.43e-07!134;UBERON:0005256!8.82e-07!45
}}
}}

Revision as of 17:54, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:64413876..64413931,-p@chr13:64413876..64413931
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Mm9::chr13:64413936..64413962,-p@chr13:64413936..64413962
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Mm9::chr5:89105136..89105154,-p4@Grsf1
Mm9::chr5:89105160..89105211,-p1@Grsf1


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:0016331morphogenesis of embryonic epithelium0.0402673533117844
GO:0009952anterior/posterior pattern formation0.0402673533117844
GO:0002009morphogenesis of an epithelium0.0402673533117844
GO:0003002regionalization0.0402673533117844
GO:0048598embryonic morphogenesis0.0427327014737304
GO:0007389pattern specification process0.0427327014737304



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
trunk region element6.09e-1679
epithelial tube1.68e-1447
trunk4.58e-1490
immaterial anatomical entity1.80e-1379
subdivision of trunk2.75e-1266
mesenchyme6.12e-1061
entire embryonic mesenchyme6.12e-1061
abdomen element1.35e-0849
abdominal segment element1.35e-0849
abdominal segment of trunk1.35e-0849
abdomen1.35e-0849
compound organ1.36e-0843
exocrine gland2.98e-0825
exocrine system2.98e-0825
liver7.84e-0822
epithelial sac7.84e-0822
digestive gland7.84e-0822
epithelium of foregut-midgut junction7.84e-0822
anatomical boundary7.84e-0822
hepatobiliary system7.84e-0822
foregut-midgut junction7.84e-0822
hepatic diverticulum7.84e-0822
liver primordium7.84e-0822
septum transversum7.84e-0822
liver bud7.84e-0822
digestive tract diverticulum2.34e-0723
sac2.34e-0723
cardiovascular system2.75e-0723
circulatory system2.75e-0723
primary circulatory organ3.90e-0718
heart3.90e-0718
primitive heart tube3.90e-0718
primary heart field3.90e-0718
anterior lateral plate mesoderm3.90e-0718
heart tube3.90e-0718
heart primordium3.90e-0718
cardiac mesoderm3.90e-0718
cardiogenic plate3.90e-0718
heart rudiment3.90e-0718
anatomical space6.38e-0757
primordium6.43e-07134
trunk mesenchyme8.82e-0745


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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