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MCL coexpression mm9:2748: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0016573;histone acetylation;0.0121075987508903;22658!GO:0031519;PcG protein complex;0.0121075987508903;22658!GO:0006473;protein amino acid acetylation;0.0121075987508903;22658!GO:0001739;sex chromatin;0.0121075987508903;22658!GO:0000803;sex chromosome;0.0121075987508903;22658!GO:0043543;protein amino acid acylation;0.0147464343760843;22658!GO:0005720;nuclear heterochromatin;0.0147464343760843;22658!GO:0000790;nuclear chromatin;0.0147464343760843;22658!GO:0016570;histone modification;0.0147464343760843;22658!GO:0000792;heterochromatin;0.0147464343760843;22658!GO:0016569;covalent chromatin modification;0.0147464343760843;22658!GO:0016604;nuclear body;0.0147464343760843;22658!GO:0044454;nuclear chromosome part;0.0240002697133032;22658!GO:0000228;nuclear chromosome;0.0259448544661934;22658!GO:0009952;anterior/posterior pattern formation;0.0288137566427437;22658!GO:0003682;chromatin binding;0.0288137566427437;22658!GO:0003002;regionalization;0.0402673533117844;22658!GO:0016568;chromatin modification;0.0426870468781387;22658!GO:0000785;chromatin;0.047302966779794;22658!
|gostat_on_MCL_coexpression=GO:0016573;histone acetylation;0.0121075987508903;22658!GO:0031519;PcG protein complex;0.0121075987508903;22658!GO:0006473;protein amino acid acetylation;0.0121075987508903;22658!GO:0001739;sex chromatin;0.0121075987508903;22658!GO:0000803;sex chromosome;0.0121075987508903;22658!GO:0043543;protein amino acid acylation;0.0147464343760843;22658!GO:0005720;nuclear heterochromatin;0.0147464343760843;22658!GO:0000790;nuclear chromatin;0.0147464343760843;22658!GO:0016570;histone modification;0.0147464343760843;22658!GO:0000792;heterochromatin;0.0147464343760843;22658!GO:0016569;covalent chromatin modification;0.0147464343760843;22658!GO:0016604;nuclear body;0.0147464343760843;22658!GO:0044454;nuclear chromosome part;0.0240002697133032;22658!GO:0000228;nuclear chromosome;0.0259448544661934;22658!GO:0009952;anterior/posterior pattern formation;0.0288137566427437;22658!GO:0003682;chromatin binding;0.0288137566427437;22658!GO:0003002;regionalization;0.0402673533117844;22658!GO:0016568;chromatin modification;0.0426870468781387;22658!GO:0000785;chromatin;0.047302966779794;22658!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004535!9.96e-13!23;UBERON:0001009!9.96e-13!23;UBERON:0007100!9.18e-11!18;UBERON:0000948!9.18e-11!18;UBERON:0005498!9.18e-11!18;UBERON:0004140!9.18e-11!18;UBERON:0009881!9.18e-11!18;UBERON:0004141!9.18e-11!18;UBERON:0003084!9.18e-11!18;UBERON:0007005!9.18e-11!18;UBERON:0004139!9.18e-11!18;UBERON:0004291!9.18e-11!18;UBERON:0004872!2.56e-09!33;UBERON:0002048!2.91e-08!14;UBERON:0000117!2.91e-08!14;UBERON:0000171!2.91e-08!14;UBERON:0000170!2.91e-08!14;UBERON:0005597!2.91e-08!14;UBERON:0000118!2.91e-08!14;UBERON:0000468!1.68e-07!333;UBERON:0000464!3.37e-07!57;UBERON:0005153!3.95e-07!17;UBERON:0005157!5.00e-07!20;UBERON:0005178!8.06e-07!17;UBERON:0005181!8.06e-07!17;UBERON:0002224!8.06e-07!17;UBERON:0000915!8.06e-07!17;UBERON:0008947!8.06e-07!17;UBERON:0003258!8.06e-07!17
}}
}}

Revision as of 18:58, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:97561641..97561663,-p2@Pcgf2
Mm9::chr4:123089124..123089175,-p1@D830031N03Rik
Mm9::chr4:123089245..123089260,-p2@D830031N03Rik


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:0016573histone acetylation0.0121075987508903
GO:0031519PcG protein complex0.0121075987508903
GO:0006473protein amino acid acetylation0.0121075987508903
GO:0001739sex chromatin0.0121075987508903
GO:0000803sex chromosome0.0121075987508903
GO:0043543protein amino acid acylation0.0147464343760843
GO:0005720nuclear heterochromatin0.0147464343760843
GO:0000790nuclear chromatin0.0147464343760843
GO:0016570histone modification0.0147464343760843
GO:0000792heterochromatin0.0147464343760843
GO:0016569covalent chromatin modification0.0147464343760843
GO:0016604nuclear body0.0147464343760843
GO:0044454nuclear chromosome part0.0240002697133032
GO:0000228nuclear chromosome0.0259448544661934
GO:0009952anterior/posterior pattern formation0.0288137566427437
GO:0003682chromatin binding0.0288137566427437
GO:0003002regionalization0.0402673533117844
GO:0016568chromatin modification0.0426870468781387
GO:0000785chromatin0.047302966779794



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
cardiovascular system9.96e-1323
circulatory system9.96e-1323
primary circulatory organ9.18e-1118
heart9.18e-1118
primitive heart tube9.18e-1118
primary heart field9.18e-1118
anterior lateral plate mesoderm9.18e-1118
heart tube9.18e-1118
heart primordium9.18e-1118
cardiac mesoderm9.18e-1118
cardiogenic plate9.18e-1118
heart rudiment9.18e-1118
splanchnic layer of lateral plate mesoderm2.56e-0933
lung2.91e-0814
respiratory tube2.91e-0814
respiration organ2.91e-0814
pair of lungs2.91e-0814
lung primordium2.91e-0814
lung bud2.91e-0814
multi-cellular organism1.68e-07333
anatomical space3.37e-0757
epithelial bud3.95e-0717
epithelial fold5.00e-0720
thoracic cavity element8.06e-0717
thoracic segment organ8.06e-0717
thoracic cavity8.06e-0717
thoracic segment of trunk8.06e-0717
respiratory primordium8.06e-0717
endoderm of foregut8.06e-0717


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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