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MCL coexpression mm9:1324: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!8.23e-22!47;UBERON:0000160!2.82e-17!31;UBERON:0000344!1.70e-09!15;UBERON:0001242!5.83e-08!13;UBERON:0000060!5.83e-08!13;UBERON:0001262!5.83e-08!13;UBERON:0004786!5.83e-08!13;UBERON:0001007!2.55e-07!116;UBERON:0001555!2.55e-07!116;UBERON:0007026!2.55e-07!116;UBERON:0004119!7.06e-07!118;UBERON:0000925!7.06e-07!118;UBERON:0006595!7.06e-07!118
|ontology_enrichment_uberon=UBERON:0005409!8.23e-22!47;UBERON:0000160!2.82e-17!31;UBERON:0000344!1.70e-09!15;UBERON:0001242!5.83e-08!13;UBERON:0000060!5.83e-08!13;UBERON:0001262!5.83e-08!13;UBERON:0004786!5.83e-08!13;UBERON:0001007!2.55e-07!116;UBERON:0001555!2.55e-07!116;UBERON:0007026!2.55e-07!116;UBERON:0004119!7.06e-07!118;UBERON:0000925!7.06e-07!118;UBERON:0006595!7.06e-07!118
|tfbs_overrepresentation_for_novel_motifs=0.491922,1.24447,0.464605,0.535892,0.916672,0.550971,0.645383,0.247459,1.31693,1.00112,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,1.22315,2.01719,0.426133,1.72037,0.657163,0.345236,0.472505,0.686615,1.1909,1.40396,0.394364,1.61954,1.37295,0.960397,1.60284,0.204204,0.364821,0.335531,0.326478,1.52228,2.26816,0.752287,0.342638,1.38433,0.0995018,0.366415,0.659176,0.524258,0.77511,0.589246,0.0835644,0.397446,0.839084,0.714419,2.2538,1.10437,1.12205,0.66551,0.406788,0.619643,1.80673,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,1.1311,0.253541,0.11437,1.156,2.50016,0.19692,0.204132,0.763395,0.922432,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,0.768392,0.0610418,0.181203,0.780154,1.77427,1.33021,2.37572,0.973447,0.35304,0.2995,0.281222,0.244935,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,0.902522,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,1.79935,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,0.52828,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.540361,0.325363,1.10596,0.783181,0.678689,1.18867,0.71546,0.983048,0.48935,0.500417,1.31911,1.03816,2.1365,0.482185,0.82857,0.671017,0.325308,0.63125,3.3831
}}
}}

Revision as of 19:44, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:36719487..36719504,+p1@Agr2
Mm9::chr3:116414693..116414702,-p13@Slc35a3
Mm9::chr3:116414738..116414765,-p6@Slc35a3
Mm9::chr3:116414767..116414783,-p8@Slc35a3
Mm9::chr3:116414784..116414800,-p5@Slc35a3
Mm9::chr7:133904212..133904258,+p4@Mapk3


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:0015780nucleotide-sugar transport0.0228469674105612
GO:0005338nucleotide-sugar transmembrane transporter activity0.0228469674105612
GO:0001784phosphotyrosine binding0.0228469674105612
GO:0045309protein phosphorylated amino acid binding0.0228469674105612
GO:0043330response to exogenous dsRNA0.0228469674105612
GO:0031663lipopolysaccharide-mediated signaling pathway0.0228469674105612
GO:0032496response to lipopolysaccharide0.0228469674105612
GO:0051219phosphoprotein binding0.0228469674105612
GO:0004707MAP kinase activity0.0228469674105612
GO:0043331response to dsRNA0.0228469674105612
GO:0002237response to molecule of bacterial origin0.0271547771255137
GO:0019233sensory perception of pain0.0365896572455163
GO:0005351sugar:hydrogen ion symporter activity0.045628859221562
GO:0051119sugar transmembrane transporter activity0.045628859221562
GO:0015144carbohydrate transmembrane transporter activity0.045628859221562
GO:0004702receptor signaling protein serine/threonine kinase activity0.0495272551654839
GO:0051216cartilage development0.0495272551654839



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
gastrointestinal system8.23e-2247
intestine2.82e-1731
mucosa1.70e-0915
intestinal mucosa5.83e-0813
anatomical wall5.83e-0813
wall of intestine5.83e-0813
gastrointestinal system mucosa5.83e-0813
digestive system2.55e-07116
digestive tract2.55e-07116
primitive gut2.55e-07116
endoderm-derived structure7.06e-07118
endoderm7.06e-07118
presumptive endoderm7.06e-07118


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}}}