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MCL coexpression mm9:1978: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!3.14e-26!31;UBERON:0005409!2.13e-21!47;UBERON:0000344!4.65e-16!15;UBERON:0001007!9.55e-15!116;UBERON:0001555!9.55e-15!116;UBERON:0007026!9.55e-15!116;UBERON:0004119!3.07e-14!118;UBERON:0000925!3.07e-14!118;UBERON:0006595!3.07e-14!118;UBERON:0001242!4.27e-14!13;UBERON:0000060!4.27e-14!13;UBERON:0001262!4.27e-14!13;UBERON:0004786!4.27e-14!13;UBERON:0004921!2.20e-13!114;UBERON:0003350!5.33e-10!9;UBERON:0004808!5.33e-10!9;UBERON:0001277!5.33e-10!9;UBERON:0002107!5.44e-10!22;UBERON:0007499!5.44e-10!22;UBERON:0006925!5.44e-10!22;UBERON:0009497!5.44e-10!22;UBERON:0000015!5.44e-10!22;UBERON:0002423!5.44e-10!22;UBERON:0006235!5.44e-10!22;UBERON:0008835!5.44e-10!22;UBERON:0003894!5.44e-10!22;UBERON:0004161!5.44e-10!22;UBERON:0008836!5.44e-10!22;UBERON:0009854!2.33e-09!23;UBERON:0009856!2.33e-09!23;UBERON:0000485!3.17e-09!11;UBERON:0004923!2.57e-08!24;UBERON:0002365!2.98e-08!25;UBERON:0002330!2.98e-08!25;UBERON:0003929!5.83e-07!55
|ontology_enrichment_uberon=UBERON:0000160!3.14e-26!31;UBERON:0005409!2.13e-21!47;UBERON:0000344!4.65e-16!15;UBERON:0001007!9.55e-15!116;UBERON:0001555!9.55e-15!116;UBERON:0007026!9.55e-15!116;UBERON:0004119!3.07e-14!118;UBERON:0000925!3.07e-14!118;UBERON:0006595!3.07e-14!118;UBERON:0001242!4.27e-14!13;UBERON:0000060!4.27e-14!13;UBERON:0001262!4.27e-14!13;UBERON:0004786!4.27e-14!13;UBERON:0004921!2.20e-13!114;UBERON:0003350!5.33e-10!9;UBERON:0004808!5.33e-10!9;UBERON:0001277!5.33e-10!9;UBERON:0002107!5.44e-10!22;UBERON:0007499!5.44e-10!22;UBERON:0006925!5.44e-10!22;UBERON:0009497!5.44e-10!22;UBERON:0000015!5.44e-10!22;UBERON:0002423!5.44e-10!22;UBERON:0006235!5.44e-10!22;UBERON:0008835!5.44e-10!22;UBERON:0003894!5.44e-10!22;UBERON:0004161!5.44e-10!22;UBERON:0008836!5.44e-10!22;UBERON:0009854!2.33e-09!23;UBERON:0009856!2.33e-09!23;UBERON:0000485!3.17e-09!11;UBERON:0004923!2.57e-08!24;UBERON:0002365!2.98e-08!25;UBERON:0002330!2.98e-08!25;UBERON:0003929!5.83e-07!55
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.128156,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.993085,0.489964,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.683591,0.570433,0.197567,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.790816,0.711848,1.12823,0.471365,0.854272,0.503207,0.623685,0.460474,0.786577,0.434783,0.40068,0.478558,0.717547,0.544696,0.504971,0.0986756,0.675898,0.938241,0.744678,0.49007,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,1.74615,0.593145,1.32691,0.323563,0.834514,0.318792,0.926147,1.08947,2.40755,0.37865,1.04072,0.884013,1.69489,1.20828,0.377699,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,0.430015,0.409166,0.367176,1.14445,0.938512,0.264911,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,0.576517,0.7614,3.31656,0.476467,0.143825,0.692434,1.02384,1.15537,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,9.01031,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.293812,0.184289,1.27621,0.416214,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,1.16191,0.788782,0.0824127
}}
}}

Revision as of 20:43, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:61191808..61191849,-p2@Slc47a1
Mm9::chr13:93616609..93616624,+p@chr13:93616609..93616624
+
Mm9::chr9:46048823..46048828,+p4@Apoa4
Mm9::chr9:46048865..46048876,+p3@Apoa4


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:0006855multidrug transport0.00588879748364596
GO:0030300regulation of cholesterol absorption0.00588879748364596
GO:0030299cholesterol absorption0.00588879748364596
GO:0044241lipid digestion0.00588879748364596
GO:0042627chylomicron0.00659509178698858
GO:0050892intestinal absorption0.00706578256317182
GO:0015893drug transport0.00732647433950719
GO:0022600digestive system process0.00732647433950719
GO:0015238drug transporter activity0.00732647433950719
GO:0042493response to drug0.0141234337457087
GO:0015297antiporter activity0.0156884018441022
GO:0007586digestion0.0156884018441022
GO:0005319lipid transporter activity0.0166511017120968
GO:0042157lipoprotein metabolic process0.0191533287968437
GO:0006869lipid transport0.0231971854661205
GO:0006810transport0.0408473186988738
GO:0051234establishment of localization0.0408473186988738
GO:0015291secondary active transmembrane transporter activity0.0458476782780808
GO:0051179localization0.04657740421181



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>

Uber Anatomy
Ontology termp-valuen
intestine3.14e-2631
gastrointestinal system2.13e-2147
mucosa4.65e-1615
digestive system9.55e-15116
digestive tract9.55e-15116
primitive gut9.55e-15116
endoderm-derived structure3.07e-14118
endoderm3.07e-14118
presumptive endoderm3.07e-14118
intestinal mucosa4.27e-1413
anatomical wall4.27e-1413
wall of intestine4.27e-1413
gastrointestinal system mucosa4.27e-1413
subdivision of digestive tract2.20e-13114
epithelium of mucosa5.33e-109
gastrointestinal system epithelium5.33e-109
intestinal epithelium5.33e-109
liver5.44e-1022
epithelial sac5.44e-1022
digestive gland5.44e-1022
epithelium of foregut-midgut junction5.44e-1022
anatomical boundary5.44e-1022
hepatobiliary system5.44e-1022
foregut-midgut junction5.44e-1022
hepatic diverticulum5.44e-1022
liver primordium5.44e-1022
septum transversum5.44e-1022
liver bud5.44e-1022
digestive tract diverticulum2.33e-0923
sac2.33e-0923
simple columnar epithelium3.17e-0911
organ component layer2.57e-0824
exocrine gland2.98e-0825
exocrine system2.98e-0825
gut epithelium5.83e-0755


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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