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MCL coexpression mm9:1153: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0002113!3.15e-31!14;UBERON:0003918!3.15e-31!14;UBERON:0011143!3.15e-31!14;UBERON:0005095!3.15e-31!14;UBERON:0007687!3.15e-31!14;UBERON:0006554!4.44e-24!18;UBERON:0001008!9.24e-23!19;UBERON:0000489!1.69e-20!21;UBERON:0001301!1.18e-16!3;UBERON:0006555!1.18e-16!3;UBERON:0005103!1.18e-16!3;UBERON:0000083!1.18e-16!3;UBERON:0009201!1.18e-16!3;UBERON:0004819!1.18e-16!3;UBERON:0006553!1.18e-16!3;UBERON:0003074!1.18e-16!3;UBERON:0003060!1.18e-16!3;UBERON:0000080!1.20e-12!4;UBERON:0005904!1.20e-12!4;UBERON:0006947!1.20e-12!4;UBERON:0002120!1.20e-12!4;UBERON:0004054!1.20e-12!4;UBERON:0004875!1.20e-12!4;UBERON:0004876!1.20e-12!4;UBERON:0005721!1.20e-12!4;UBERON:0005754!1.20e-12!4;UBERON:0007297!1.20e-12!4;UBERON:0001343!1.54e-11!2;UBERON:0004910!1.54e-11!2;UBERON:0004909!1.54e-11!2;UBERON:0005154!1.54e-11!2;UBERON:0005295!1.54e-11!2;UBERON:0005297!1.54e-11!2;UBERON:0005294!1.54e-11!2;UBERON:0010141!1.54e-11!2;UBERON:0005891!1.54e-11!2;UBERON:0004175!4.82e-10!9;UBERON:0003103!1.82e-09!43;UBERON:0005172!3.61e-08!49;UBERON:0005173!3.61e-08!49;UBERON:0002417!3.61e-08!49;UBERON:0000916!3.61e-08!49;UBERON:0000992!5.45e-08!3;UBERON:0004871!5.45e-08!3;UBERON:0003133!8.39e-08!24;UBERON:0000058!1.87e-07!7;UBERON:0006834!2.75e-07!1;UBERON:0005156!3.59e-07!26;UBERON:0000990!3.59e-07!26;UBERON:0003134!9.24e-07!8
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.161863,0.411716,0.480627,0.810002,0.495263,0.587291,1.12275,0.616096,0.219671,0.542749,0.575086,0.206435,0.599731,0.315771,0,0.795315,0.291368,1.06769,1.75604,0.374752,0.586604,0.598814,0.80655,0.419327,0.62766,0.542568,0.516511,1.63164,0.876948,0.50223,0.897561,0.78719,0.498917,0.316253,0.101236,0.279977,0.57142,0.717242,0.230656,0.295233,0.507468,0.932136,0.317766,0.822425,0.469348,0.714592,0.532496,1.25414,0.347313,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,0.522357,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.608073,0.0869413,1.09164,0.17012,0.936963,0.166511,0.703064,0.859987,0.98764,1.14907,0.812889,0.663039,0.200155,0.975495,0.0369809,2.50868,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.254625,1.24315,0.203879,0.913319,0.71485,0.127063,0.7665,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,1.30996,0.383871,0.376549,0.430942,1.02459,2.63898,0.547992,1.27206,1.45003,0.187586,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,1.46009,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,1.13988,0.300961,0.452587,0.0736236,1.04192,0.681896,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.227149
}}

Latest revision as of 16:28, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr16:86806752..86806765,-p1@uc007zty.1
Mm9::chr6:38097369..38097379,-p11@D630045J12Rik
Mm9::chr6:38097380..38097407,-p6@D630045J12Rik
Mm9::chr6:38097421..38097440,-p7@D630045J12Rik
Mm9::chr6:48852985..48853005,-p@chr6:48852985..48853005
-
Mm9::chr7:51827954..51827987,+p1@Napsa
Mm9::chr7:51840408..51840435,+p@chr7:51840408..51840435
+


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:0004194pepsin A activity0.00613597764751
GO:0004190aspartic-type endopeptidase activity0.00690297485344875



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
kidney3.15e-3114
kidney mesenchyme3.15e-3114
upper urinary tract3.15e-3114
kidney rudiment3.15e-3114
kidney field3.15e-3114
urinary system structure4.44e-2418
renal system9.24e-2319
cavitated compound organ1.69e-2021
epididymis1.18e-163
excretory tube1.18e-163
mesonephric epithelium1.18e-163
mesonephric tubule1.18e-163
nephric duct1.18e-163
kidney epithelium1.18e-163
renal duct1.18e-163
mesonephric duct1.18e-163
pronephric duct1.18e-163
mesonephros1.20e-124
duct of male reproductive system1.20e-124
male genital duct1.20e-124
pronephros1.20e-124
internal male genitalia1.20e-124
nephrogenic cord1.20e-124
urogenital ridge1.20e-124
pronephric mesoderm1.20e-124
rostral part of nephrogenic cord1.20e-124
presumptive pronephric mesoderm1.20e-124
seminiferous tubule of testis1.54e-112
epithelium of male gonad1.54e-112
epithelium of gonad1.54e-112
epithelial cord1.54e-112
sex cord1.54e-112
testis sex cord1.54e-112
genital ridge1.54e-112
primitive sex cord of indifferent gonad1.54e-112
coelomic epithelium1.54e-112
internal genitalia4.82e-109
compound organ1.82e-0943
abdomen element3.61e-0849
abdominal segment element3.61e-0849
abdominal segment of trunk3.61e-0849
abdomen3.61e-0849
female gonad5.45e-083
somatic layer of lateral plate mesoderm5.45e-083
reproductive organ8.39e-0824
duct1.87e-077
uterus or analog2.75e-071
reproductive structure3.59e-0726
reproductive system3.59e-0726
female reproductive organ9.24e-078


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)
MA0003.10.0861444
MA0004.10.481116
MA0006.10.311391
MA0007.10.465969
MA0009.10.92425
MA0014.10.425579
MA0017.10.337808
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.321735
MA0029.10.858105
MA0030.10.864739
MA0031.10.828781
MA0038.10.62758
MA0040.10.936879
MA0041.10.404721
MA0042.10.391504
MA0043.11.02178
MA0046.10.960497
MA0048.10.128106
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.11.0092
MA0056.10
MA0057.10.117936
MA0058.11.00014
MA0059.10.397033
MA0060.10.232592
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.10.121435
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.10.490396
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.10.0841779
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.10.329976
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.10.406019
MA0103.10.920496
MA0105.10.162418
MA0106.10.677988
MA0107.10.342432
MA0108.20.763162
MA0109.10
MA0111.11.16549
MA0113.10.649407
MA0114.10.259463
MA0115.11.0246
MA0116.10.311187
MA0117.10.992087
MA0119.10.40661
MA0122.11.01209
MA0124.11.21735
MA0125.11.14291
MA0130.10
MA0131.10.735438
MA0132.10
MA0133.10
MA0135.11.05845
MA0136.10.600242
MA0139.10.202522
MA0140.10.568252
MA0141.10.368264
MA0142.10.814115
MA0143.10.665982
MA0144.10.262477
MA0145.10.0910975
MA0146.10.264322
MA0147.10.274511
MA0148.10.49752
MA0149.10.411562
MA0062.20.167299
MA0035.20.573016
MA0039.20.014361
MA0138.21.72682
MA0002.20.205289
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.21.5617
MA0065.20.0914071
MA0150.12.04738
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.126143
MA0155.10.102995
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.284457
MA0160.10.50056
MA0161.10
MA0162.10.0312493
MA0163.10.0280055
MA0164.11.46244
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.29.18389e-06
MA0102.21.65195
MA0258.10.688848
MA0259.10.26402
MA0442.10
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