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MCL coexpression mm9:1074: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001007!1.21e-10!116;UBERON:0001555!1.21e-10!116;UBERON:0007026!1.21e-10!116;UBERON:0004119!2.06e-10!118;UBERON:0000925!2.06e-10!118;UBERON:0006595!2.06e-10!118;UBERON:0004921!9.97e-10!114;UBERON:0005409!1.55e-08!47;UBERON:0000344!1.62e-08!15;UBERON:0004923!1.69e-08!24;UBERON:0002204!6.89e-08!32;UBERON:0000160!1.31e-07!31;UBERON:0001242!2.93e-07!13;UBERON:0000060!2.93e-07!13;UBERON:0001262!2.93e-07!13;UBERON:0004786!2.93e-07!13;UBERON:0002371!5.62e-07!16
|ontology_enrichment_uberon=UBERON:0001007!1.21e-10!116;UBERON:0001555!1.21e-10!116;UBERON:0007026!1.21e-10!116;UBERON:0004119!2.06e-10!118;UBERON:0000925!2.06e-10!118;UBERON:0006595!2.06e-10!118;UBERON:0004921!9.97e-10!114;UBERON:0005409!1.55e-08!47;UBERON:0000344!1.62e-08!15;UBERON:0004923!1.69e-08!24;UBERON:0002204!6.89e-08!32;UBERON:0000160!1.31e-07!31;UBERON:0001242!2.93e-07!13;UBERON:0000060!2.93e-07!13;UBERON:0001262!2.93e-07!13;UBERON:0004786!2.93e-07!13;UBERON:0002371!5.62e-07!16
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.161863,0.411716,0.480627,0.810002,0.495263,0.587291,1.12275,0.215218,0.0609112,0.542749,0.575086,0.206435,0.599731,0.847296,0,0.795315,0.291368,1.06769,0.731589,0.978328,0.586604,0.598814,0.29769,0.419327,0.62766,0.542568,0.516511,0.344372,0.145661,1.25421,0.897561,0.289148,0.498917,0.848378,0.756613,0.279977,0.57142,1.32199,0.230656,0.295233,0.507468,0.0742755,0.317766,0.515031,0.469348,0.714592,0.532496,0.478447,0.347313,0.777641,0.654933,0.139618,1.04034,1.0579,0.606984,0.356236,0.56214,0.522357,0.604914,0.877332,0.664501,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.608073,0.0869413,1.09164,0.17012,0.482617,0.963958,0.703064,0.859987,0.98764,0.212973,0.812889,0.663039,1.72681,0.975495,0.146394,0.164297,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.254625,0.237542,0.589174,0.913319,0.71485,0.399703,0.7665,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,0.430942,1.02459,0.990132,1.35148,1.27206,0.796976,0.0501572,0.484437,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.0806013,0.446555,0.508896,1.24438,2.07659,1.67603,2.69111,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.147909,0.0736236,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.433127
}}
}}

Revision as of 19:21, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:48759650..48759652,-p8@Psme2
Mm9::chr11:83391998..83392010,-p1@Ccl9
Mm9::chr12:112680864..112680880,+p1@Tnfaip2
Mm9::chr19:11124903..11124923,-p1@AW112010
Mm9::chr19:11124926..11124931,-p2@AW112010
Mm9::chr2:26883436..26883515,-p1@Slc2a6
Mm9::chr3:127483168..127483206,-p2@Alpk1


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:0008538proteasome activator activity0.0377937211406515
GO:0008537proteasome activator complex0.0377937211406515



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
digestive system1.21e-10116
digestive tract1.21e-10116
primitive gut1.21e-10116
endoderm-derived structure2.06e-10118
endoderm2.06e-10118
presumptive endoderm2.06e-10118
subdivision of digestive tract9.97e-10114
gastrointestinal system1.55e-0847
mucosa1.62e-0815
organ component layer1.69e-0824
musculoskeletal system6.89e-0832
intestine1.31e-0731
intestinal mucosa2.93e-0713
anatomical wall2.93e-0713
wall of intestine2.93e-0713
gastrointestinal system mucosa2.93e-0713
bone marrow5.62e-0716


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}}}