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MCL coexpression mm9:1175: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!3.09e-13!47;UBERON:0000160!4.96e-11!31;UBERON:0004923!4.51e-10!24;UBERON:0004119!2.61e-09!118;UBERON:0000925!2.61e-09!118;UBERON:0006595!2.61e-09!118;UBERON:0001007!1.35e-08!116;UBERON:0001555!1.35e-08!116;UBERON:0007026!1.35e-08!116;UBERON:0000344!2.75e-08!15;UBERON:0004921!8.50e-08!114;UBERON:0001242!4.47e-07!13;UBERON:0000060!4.47e-07!13;UBERON:0001262!4.47e-07!13;UBERON:0004786!4.47e-07!13
|tfbs_overrepresentation_for_novel_motifs=1.11639,1.45672,0.411716,0.480627,0.299217,0.495263,0.587291,0.594722,0.215218,0.478312,0.542749,0.575086,0.206435,0.599731,0.315771,0,0.795315,0.291368,0.19222,0.731589,0.374752,1.47264,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.911169,0.876948,0.50223,0.897561,0.78719,0.498917,0.316253,1.97038,0.279977,0.57142,0.258564,0.652422,0.295233,0.507468,0.0742755,0.851774,0.277561,0.469348,1.70029,1.31862,0.219744,0.917701,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,0.176152,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,1.01778,0.21183,0.0869413,1.09164,1.55661,0.482617,0.498755,0.703064,0.859987,0.378988,0.212973,0.812889,0.663039,0.200155,0.975495,3.54942,0.667407,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.203879,0.913319,0.71485,0.79664,0.280055,0.897279,1.02279,0.778243,0.777175,1.26443,0.837607,0.528416,0.998363,0.376549,0.430942,1.02459,0.380122,0.547992,1.27206,0.293461,0.418498,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.0806013,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.813943,1.42503,0.545091,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,1.13413,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.763807,0.573477,1.86859
}}

Latest revision as of 16:30, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr1:127332009..127332021,-p4@Actr3
Mm9::chr2:22895697..22895721,-p1@Abi1
Mm9::chr2:93302614..93302651,-p2@Cd82
Mm9::chr5:38952793..38952861,-p1@Wdr1
Mm9::chr7:13620071..13620131,-p1@Chmp2a
Mm9::chr8:26212206..26212264,-p1@Plekha2
Mm9::chr9:122203479..122203525,-p1@Ano10


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:0030027lamellipodium0.00946547036280019
GO:0031252leading edge0.0114244153791895
GO:0030296protein tyrosine kinase activator activity0.0197200838402074
GO:0015629actin cytoskeleton0.0295639229480919
GO:0005856cytoskeleton0.0295639229480919
GO:0005545phosphatidylinositol binding0.0295639229480919
GO:0003779actin binding0.0325950479901803
GO:0030295protein kinase activator activity0.0332457491844284
GO:0019209kinase activator activity0.039386181975423
GO:0008092cytoskeletal protein binding0.0429271196841837
GO:0042995cell projection0.0461570015377674



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 system3.09e-1347
intestine4.96e-1131
organ component layer4.51e-1024
endoderm-derived structure2.61e-09118
endoderm2.61e-09118
presumptive endoderm2.61e-09118
digestive system1.35e-08116
digestive tract1.35e-08116
primitive gut1.35e-08116
mucosa2.75e-0815
subdivision of digestive tract8.50e-08114
intestinal mucosa4.47e-0713
anatomical wall4.47e-0713
wall of intestine4.47e-0713
gastrointestinal system mucosa4.47e-0713


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)
MA0003.11.08574
MA0004.10.481116
MA0006.10.837454
MA0007.10.465969
MA0009.10.92425
MA0014.11.41063
MA0017.10.89657
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.12.35736
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
MA0048.10.40238
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.362005
MA0056.10
MA0057.11.23731
MA0058.10.384683
MA0059.10.397033
MA0060.10.232592
MA0061.11.33382
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.10.771749
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.17.31106
MA0074.10.580087
MA0076.11.67548
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.12.32874
MA0084.11.59945
MA0087.10.977537
MA0088.12.67639
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.10.329976
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.11.0468
MA0103.10.348572
MA0105.10.9471
MA0106.10.677988
MA0107.11.62481
MA0108.20.763162
MA0109.10
MA0111.10.460823
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
MA0139.11.10833
MA0140.10.568252
MA0141.10.368264
MA0142.10.814115
MA0143.10.665982
MA0144.10.72625
MA0145.10.304732
MA0146.13.11443
MA0147.10.753844
MA0148.10.49752
MA0149.11.86411
MA0062.23.73281
MA0035.20.573016
MA0039.26.12783
MA0138.20.727395
MA0002.20.205289
MA0137.21.70505
MA0104.21.17226
MA0047.20.626803
MA0112.20.304722
MA0065.20.0914071
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.792589
MA0155.10.336768
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.284457
MA0160.10.50056
MA0161.10
MA0162.11.71182
MA0163.11.20194
MA0164.10.600609
MA0080.20.343316
MA0018.21.48306
MA0099.20.721008
MA0079.24.54496
MA0102.21.65195
MA0258.10.246285
MA0259.11.34223
MA0442.10
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