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MCL coexpression mm9:513: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0004119!1.01e-14!118;UBERON:0000925!1.01e-14!118;UBERON:0006595!1.01e-14!118;UBERON:0001007!4.08e-14!116;UBERON:0001555!4.08e-14!116;UBERON:0007026!4.08e-14!116;UBERON:0004921!3.07e-13!114;UBERON:0005409!4.15e-11!47;UBERON:0000160!7.29e-11!31;UBERON:0004923!5.72e-09!24;UBERON:0002193!6.05e-09!48;UBERON:0002405!6.05e-09!48;UBERON:0002390!1.08e-07!45;UBERON:0003061!1.08e-07!45;UBERON:0002371!2.15e-07!16
|tfbs_overrepresentation_for_novel_motifs=0.6379,0.686627,1.74927,0.25808,0.391122,0.269875,0.346405,0.237242,0.251553,0.415336,0.831817,0.336042,1.83484,0.939225,0.134875,0,0.530547,0.118546,0.814719,0.465097,0.176628,0.329508,0.937489,0.388504,0.210021,0.992246,0.0554034,0.782755,0.154744,0.145734,1.38465,0.624931,0.373899,1.53273,1.34707,1.11797,1.19268,0.885722,0.097604,0.276416,0.121091,0.76591,0.145909,0.136236,0.698798,0.695306,0.457618,0.300372,0.112678,0.474834,0.514446,0.404841,0.584697,0.759566,0.776306,1.69768,0.490599,0.325117,1.14185,0.36147,0.606104,0.413233,0.26973,1.25819,0.974413,1.33757,0.908031,1.25063,0.60172,1.10561,0.555733,1.8749,0.587721,0.808562,1.56008,0.166516,0.0464428,0.447339,0.590017,0.179738,0.247973,0.546623,0.411949,0.227715,0.69807,1.85701,0.290012,0.145915,0.462057,1.41118,0.975915,1.67583,0.636995,0.127646,0.651159,0.287636,0.503836,0.639644,0.457849,1.21972,0.725622,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.296997,1.03226,0.526725,0.62491,0.744577,0.180573,0.313258,0.982794,0.381263,0.342134,0.26114,0.53175,0.108794,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.129636,0.726634,0.252176,0.877862,0.375176,1.0039,0.012643,0.231086,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,1.22575,0.394117,1.86079,1.44344,0.761071,0.618088,0.977476,0.839715,1.04618,0.143092,0.222538,1.89363,0.96517,0.697256,0.593895,0.21719,0.50503,0.367885,1.18797,0.33468,3.18582
}}

Latest revision as of 15:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:41196132..41196198,+p1@Mical1
Mm9::chr10:79565385..79565396,-p5@Sbno2
Mm9::chr10:79565398..79565473,-p1@Sbno2
Mm9::chr11:75345629..75345653,+p2@Slc43a2
Mm9::chr17:87682220..87682290,+p1@Ttc7
Mm9::chr1:137180583..137180643,-p1@Rnpep
Mm9::chr6:113588477..113588538,+p1@Irak2
Mm9::chr7:140005334..140005350,-p3@Fam53b
Mm9::chr7:140005363..140005385,-p4@Fam53b
Mm9::chr9:113840256..113840306,+p1@Ubp1
Mm9::chr9:20935695..20935732,-p1@Tyk2
Mm9::chrX:70962051..70962089,+p1@Abcd1
Mm9::chrX:70962092..70962118,+p3@Abcd1
Mm9::chrX:70962125..70962138,+p4@Abcd1


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

no results for this coexpression

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 structure1.01e-14118
endoderm1.01e-14118
presumptive endoderm1.01e-14118
digestive system4.08e-14116
digestive tract4.08e-14116
primitive gut4.08e-14116
subdivision of digestive tract3.07e-13114
gastrointestinal system4.15e-1147
intestine7.29e-1131
organ component layer5.72e-0924
hemolymphoid system6.05e-0948
immune system6.05e-0948
hematopoietic system1.08e-0745
blood island1.08e-0745
bone marrow2.15e-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)
MA0003.14.25384
MA0004.10.258473
MA0006.10.412095
MA0007.10.246385
MA0009.10.649874
MA0014.11.94549
MA0017.10.150118
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.848314
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.198922
MA0042.10.189008
MA0043.10.74191
MA0046.10.683926
MA0048.10.84922
MA0050.10.290354
MA0051.10.388883
MA0052.10.669354
MA0055.11.23886
MA0056.10
MA0057.11.56086
MA0058.10.183941
MA0059.10.19314
MA0060.11.47333
MA0061.11.11472
MA0063.10
MA0066.10.371389
MA0067.12.24847
MA0068.10.0266408
MA0069.10.669676
MA0070.10.660488
MA0071.10.788348
MA0072.10.652465
MA0073.13.40062
MA0074.10.902074
MA0076.10.952244
MA0077.10.632005
MA0078.10.418168
MA0081.10.605506
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.339729
MA0089.10
MA0090.10.653402
MA0091.10.269175
MA0092.10.231323
MA0093.10.144649
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.57968
MA0103.10.157724
MA0105.11.05934
MA0106.11.08833
MA0107.10.46624
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.11.03368
MA0114.10.0981613
MA0115.10.744589
MA0116.10.411741
MA0117.10.713754
MA0119.10.200349
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.940193
MA0139.11.29812
MA0140.10.330266
MA0141.10.511953
MA0142.10.547747
MA0143.10.414534
MA0144.10.328866
MA0145.10.189432
MA0146.11.84184
MA0147.10.107632
MA0148.10.271704
MA0149.10.204102
MA0062.22.60889
MA0035.20.33429
MA0039.26.1555
MA0138.22.05815
MA0002.20.235791
MA0137.20.169785
MA0104.20.0740839
MA0047.20.380343
MA0112.20.189423
MA0065.20.371748
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.15.17391
MA0155.10.423059
MA0156.11.51527
MA0157.10.518122
MA0158.10
MA0159.11.2118
MA0160.11.37966
MA0161.10
MA0162.10.540226
MA0163.14.15541
MA0164.10.357779
MA0080.20.467794
MA0018.20.366212
MA0099.20.463355
MA0079.27.23264
MA0102.21.35579
MA0258.10.0900907
MA0259.10.678628
MA0442.10
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