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MCL coexpression mm9:1281: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004119!2.67e-14!118;UBERON:0000925!2.67e-14!118;UBERON:0006595!2.67e-14!118;UBERON:0001007!9.01e-14!116;UBERON:0001555!9.01e-14!116;UBERON:0007026!9.01e-14!116;UBERON:0005409!1.11e-13!47;UBERON:0005177!3.76e-13!79;UBERON:0000160!4.11e-13!31;UBERON:0004921!1.00e-12!114;UBERON:0000466!2.13e-10!79;UBERON:0009569!3.39e-10!66;UBERON:0002100!5.91e-10!90;UBERON:0000344!3.71e-09!15;UBERON:0001242!6.91e-08!13;UBERON:0000060!6.91e-08!13;UBERON:0001262!6.91e-08!13;UBERON:0004786!6.91e-08!13;UBERON:0004923!1.36e-07!24
|tfbs_overrepresentation_for_novel_motifs=0.491922,2.89741,0.464605,0.535892,0.346849,0.550971,0.645383,0.247459,0.257202,1.48899,0.599767,0.632897,0.247704,0.6581,0.364314,0,0.856992,0.338549,0.232269,0.143775,0.426133,0.108444,0.657163,0.345236,0.472505,0.686615,0.223823,0.572827,1.02135,0.534301,0.558142,0.960397,0.892985,0.589948,0.364821,1.36145,0.871288,0.629145,0.303703,0.27383,0.342638,0.56353,0.0995018,0.366415,1.45501,1.30113,0.77511,0.589246,0.284064,0.397446,0.839084,0.714419,0.174327,1.10437,1.12205,0.66551,0.406788,0.619643,0.614918,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,0.253541,1.21401,1.156,1.13013,0.19692,0.204132,0.763395,0.922432,0.430551,0.254777,0.874787,0.722675,0.240896,1.03903,1.6478,0.220054,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.2995,0.281222,0.685716,0.976308,0.775372,0.483322,0.326561,0.960112,1.08669,0.839694,0.838613,1.38336,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,0.902522,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,1.30967,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.348692,0.540361,0.667976,1.10596,0.287383,0.678689,1.18867,0.71546,0.983048,0.48935,0.500417,1.31911,1.03816,0.926663,0.482185,0.82857,0.671017,0.325308,0.63125,3.3831
}}

Latest revision as of 16:40, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:20532100..20532111,+p4@Sertad2
Mm9::chr5:32913568..32913618,+p1@Yes1
Mm9::chr6:94233842..94233930,-p1@Magi1
Mm9::chr8:25549409..25549424,-p1@1810011O10Rik
Mm9::chr8:58773375..58773389,+p1@Hpgd
Mm9::chr9:107470234..107470272,+p@chr9:107470234..107470272
+


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:001640415-hydroxyprostaglandin dehydrogenase (NAD+) activity0.033145236399496



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
endoderm-derived structure2.67e-14118
endoderm2.67e-14118
presumptive endoderm2.67e-14118
digestive system9.01e-14116
digestive tract9.01e-14116
primitive gut9.01e-14116
gastrointestinal system1.11e-1347
trunk region element3.76e-1379
intestine4.11e-1331
subdivision of digestive tract1.00e-12114
immaterial anatomical entity2.13e-1079
subdivision of trunk3.39e-1066
trunk5.91e-1090
mucosa3.71e-0915
intestinal mucosa6.91e-0813
anatomical wall6.91e-0813
wall of intestine6.91e-0813
gastrointestinal system mucosa6.91e-0813
organ component layer1.36e-0724


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)
MA0003.13.21844
MA0004.11.3269
MA0006.10.359699
MA0007.11.29371
MA0009.10.987341
MA0014.12.21808
MA0017.11.00628
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.969171
MA0029.10.920529
MA0030.10.927235
MA0031.10.890871
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.10.443591
MA0043.12.46016
MA0046.11.02391
MA0048.10.486223
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.807132
MA0056.10
MA0057.10.457693
MA0058.10.436487
MA0059.10.449345
MA0060.10.275911
MA0061.10.827788
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.467569
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.401473
MA0074.11.54084
MA0076.10.407465
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.358337
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.10.988233
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.11.03097
MA0105.11.09694
MA0106.10.737893
MA0107.11.0169
MA0108.21.92698
MA0109.10
MA0111.12.21202
MA0113.10.708789
MA0114.10.822296
MA0115.11.08851
MA0116.10.359483
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.11.2655
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.829535
MA0145.11.24552
MA0146.12.42438
MA0147.10.320675
MA0148.10.553294
MA0149.10.464445
MA0062.20.591842
MA0035.20.630778
MA0039.22.61252
MA0138.20.788113
MA0002.20.246463
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.20.37938
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.11.13945
MA0154.10.480757
MA0155.10.822245
MA0156.10.406559
MA0157.10.843181
MA0158.10
MA0159.10.881902
MA0160.10.556423
MA0161.10
MA0162.10.70356
MA0163.11.4645
MA0164.11.58466
MA0080.20.393257
MA0018.21.60558
MA0099.20.781628
MA0079.21.5775
MA0102.21.7182
MA0258.10.790457
MA0259.10.309517
MA0442.10
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