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MCL coexpression mm9:130: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002106!5.93e-09!6;UBERON:0004457!5.93e-09!6;UBERON:0000042!5.93e-09!6;UBERON:0004854!5.93e-09!6;UBERON:0009034!5.93e-09!6;UBERON:0002095!5.93e-09!6;UBERON:0004782!5.93e-09!6;UBERON:0003281!5.93e-09!6;UBERON:0009664!5.93e-09!6;UBERON:0002296!5.93e-09!6;UBERON:0005602!5.93e-09!6;UBERON:0001179!5.93e-09!6;UBERON:0006293!5.93e-09!6;UBERON:0003887!3.99e-08!10;UBERON:0005172!2.91e-07!49;UBERON:0005173!2.91e-07!49;UBERON:0002417!2.91e-07!49;UBERON:0000916!2.91e-07!49
|tfbs_overrepresentation_for_novel_motifs=0.269434,0.0103455,0.343545,0.567875,0.691681,0.0574944,0.127593,0.685983,0.0662191,0.056155,0.194635,0.425762,0.412268,0.488104,0.609072,0,0.179059,0.233573,0.883231,0.430757,0.145715,0.121596,0.138694,1.099,0.540062,0.0637413,1.6,0.975742,0.176789,0.051518,0.141313,0.587339,0.33528,0.490066,0.000788719,0.0334,0.00573243,0.237869,0.60237,0.0120148,0.245123,0.668048,0.274536,1.55104,0.268743,0.0435849,0.115419,0.327161,0.196609,0.104754,0.373368,0.0780469,0.2911,0.452765,0.15741,0.297579,0.848781,0.223387,1.2491,0.0531313,0.258187,0.0185955,0.0837381,0.0394935,0.158609,0.0508433,0.239758,0.504246,0.0725644,0.385255,0.0955454,1.55249,0.011205,0.522659,0.0199523,0.334354,0.204291,0.0253389,1.33111,0.560281,1.33455,0.194831,0.98455,0.37513,0.11559,1.62974e-06,0.000109212,0.43181,0.0286534,0.644359,1.42711,0.37615,0.293983,0.106186,0.00885685,0.347691,0.829951,0.0883166,0.516185,0.214638,2.28906,0.0819076,0.138831,0.37434,0.664979,0.0034282,0.0603843,0.318354,0.0388299,0.00294879,0.143987,0.432056,0.15464,0.202206,0.292119,0.84619,2.17542e-05,0.00249347,0.404569,1.64094,0.179403,0.586332,1.19695,0.48774,0.881989,0.0693513,0.135509,0.0844201,0.238763,0.41246,0.130183,0.354928,0.219708,0.0125573,0.828771,0.036037,0.083312,0.277825,0.272864,0.984367,0.616235,0.242858,0.0709003,0.0862141,0.0406241,0.66982,0.83338,0.946754,0.662115,0.00923176,0.260888,1.19571e-06,0.148817,0.267057,0.320853,0.568725,0.390191,0.234756,0.263836,0.288356,0.279451,0.368927,0.244566,0.140775,0.356792,0.152416,0.740488,0.655911,0.00338795
}}

Latest revision as of 14:45, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79337250..79337261,+p5@Prtn3
Mm9::chr10:79342402..79342414,+p1@Prtn3
Mm9::chr10:79343725..79343765,+p2@Prtn3
Mm9::chr10:79343768..79343782,+p4@Prtn3
Mm9::chr10:79349047..79349064,+p1@Elane
Mm9::chr10:79349556..79349564,+p@chr10:79349556..79349564
+
Mm9::chr10:79349627..79349647,+p@chr10:79349627..79349647
+
Mm9::chr10:79350370..79350389,+p@chr10:79350370..79350389
+
Mm9::chr10:79350409..79350430,+p@chr10:79350409..79350430
+
Mm9::chr10:79350662..79350670,+p@chr10:79350662..79350670
+
Mm9::chr11:100940993..100941003,+p@chr11:100940993..100941003
+
Mm9::chr11:102051154..102051184,+p2@G6pc3
Mm9::chr11:102106691..102106729,+p@chr11:102106691..102106729
+
Mm9::chr11:75228646..75228653,-p15@Serpinf1
Mm9::chr11:86427784..86427788,-p@chr11:86427784..86427788
-
Mm9::chr11:87606908..87606917,+p12@Mpo
Mm9::chr11:87606934..87606947,+p8@Mpo
Mm9::chr11:87606972..87606985,+p10@Mpo
Mm9::chr11:87607224..87607307,+p1@Mpo
Mm9::chr11:87607333..87607349,+p3@Mpo
Mm9::chr11:87607545..87607559,+p4@Mpo
Mm9::chr11:87608281..87608317,+p7@Mpo
Mm9::chr11:87608715..87608729,+p@chr11:87608715..87608729
+
Mm9::chr11:87608788..87608802,+p@chr11:87608788..87608802
+
Mm9::chr11:87608809..87608820,+p@chr11:87608809..87608820
+
Mm9::chr11:87609285..87609294,+p@chr11:87609285..87609294
+
Mm9::chr11:87609357..87609376,+p@chr11:87609357..87609376
+
Mm9::chr11:87609533..87609545,+p@chr11:87609533..87609545
+
Mm9::chr11:87609585..87609595,+p@chr11:87609585..87609595
+
Mm9::chr11:87609755..87609765,+p@chr11:87609755..87609765
+
Mm9::chr11:87609862..87609910,+p@chr11:87609862..87609910
+
Mm9::chr11:87609923..87609936,-p@chr11:87609923..87609936
-
Mm9::chr11:87610818..87610833,+p@chr11:87610818..87610833
+
Mm9::chr11:87610930..87610947,+p@chr11:87610930..87610947
+
Mm9::chr11:87610960..87610973,+p@chr11:87610960..87610973
+
Mm9::chr11:87610986..87610995,+p@chr11:87610986..87610995
+
Mm9::chr11:87611059..87611070,+p@chr11:87611059..87611070
+
Mm9::chr11:87611109..87611119,+p@chr11:87611109..87611119
+
Mm9::chr11:87613391..87613402,+p@chr11:87613391..87613402
+
Mm9::chr11:87613474..87613486,+p@chr11:87613474..87613486
+
Mm9::chr11:87614543..87614553,+p@chr11:87614543..87614553
+
Mm9::chr11:87614718..87614764,+p@chr11:87614718..87614764
+
Mm9::chr12:78309274..78309291,+p@chr12:78309274..78309291
+
Mm9::chr14:45657852..45657854,+p@chr14:45657852..45657854
+
Mm9::chr14:56704051..56704054,-p1@Mcpt8
Mm9::chr14:56719550..56719560,-p@chr14:56719550..56719560
-
Mm9::chr14:56721295..56721309,-p1@Ctsg
Mm9::chr14:56723970..56723977,-p@chr14:56723970..56723977
-
Mm9::chr15:100640903..100640925,+p@chr15:100640903..100640925
+
Mm9::chr15:100641018..100641032,+p@chr15:100641018..100641032
+
Mm9::chr15:74901233..74901244,+p@chr15:74901233..74901244
+
Mm9::chr15:98371815..98371820,+p@chr15:98371815..98371820
+
Mm9::chr16:93958044..93958047,+p@chr16:93958044..93958047
+
Mm9::chr17:74715425..74715447,-p4@Dpy30
Mm9::chr18:15353759..15353770,+p@chr18:15353759..15353770
+
Mm9::chr19:11698168..11698199,-p1@Ms4a2
Mm9::chr19:11715203..11715216,-p3@Ms4a3
Mm9::chr19:11715217..11715234,-p1@Ms4a3
Mm9::chr19:11715262..11715263,-p6@Ms4a3
Mm9::chr19:11715293..11715298,-p5@Ms4a3
Mm9::chr19:11715318..11715330,-p4@Ms4a3
Mm9::chr19:11715334..11715346,-p2@Ms4a3
Mm9::chr1:166017042..166017053,-p@chr1:166017042..166017053
-
Mm9::chr1:179641376..179641382,+p@chr1:179641376..179641382
+
Mm9::chr2:131977673..131977687,+p@chr2:131977673..131977687
+
Mm9::chr2:169957879..169957886,+p@chr2:169957879..169957886
+
Mm9::chr2:29917367..29917379,+p3@Gm9531
p3@LOC100504508
p9@Set
Mm9::chr2:29917402..29917411,+p11@Set
p5@Gm9531
p5@LOC100504508
Mm9::chr2:29917425..29917432,+p10@Set
p4@Gm9531
p4@LOC100504508
Mm9::chr2:44967789..44967800,+p7@Gm13476
Mm9::chr3:100728851..100728869,+p@chr3:100728851..100728869
+
Mm9::chr4:102651296..102651318,+p@chr4:102651296..102651318
+
Mm9::chr4:118084341..118084363,+p2@Med8
Mm9::chr4:88168746..88168751,-p1@Ifnb1
Mm9::chr5:128096180..128096192,+p@chr5:128096180..128096192
+
Mm9::chr5:138041010..138041047,-p@chr5:138041010..138041047
-
Mm9::chr5:53980199..53980204,+p@chr5:53980199..53980204
+
Mm9::chr6:17358333..17358351,+p@chr6:17358333..17358351
+
Mm9::chr7:134005204..134005242,-p4@Ino80e
Mm9::chr7:50692336..50692351,+p2@Nkg7
Mm9::chr7:50692956..50692966,+p@chr7:50692956..50692966
+
Mm9::chr7:50692970..50692994,+p@chr7:50692970..50692994
+
Mm9::chr7:87975697..87975732,+p@chr7:87975697..87975732
+
Mm9::chr8:108535303..108535321,-p@chr8:108535303..108535321
-
Mm9::chr8:33060518..33060546,-p3@Nrg1
Mm9::chr9:48211876..48211916,+p@chr9:48211876..48211916
+
Mm9::chr9:48212007..48212021,+p@chr9:48212007..48212021
+
Mm9::chr9:48212037..48212046,+p@chr9:48212037..48212046
+
Mm9::chr9:69287812..69287815,-p@chr9:69287812..69287815
-
Mm9::chr9:69291132..69291136,-p@chr9:69291132..69291136
-
Mm9::chr9:70305690..70305706,-p@chr9:70305690..70305706
-


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:0005615extracellular space0.0212704807911146
GO:0044421extracellular region part0.0212704807911146
GO:0004252serine-type endopeptidase activity0.0343763886439808
GO:0017171serine hydrolase activity0.0343763886439808
GO:0008236serine-type peptidase activity0.0343763886439808
GO:0004261cathepsin G activity0.0390072864734564
GO:0005176ErbB-2 class receptor binding0.0467895094059812
GO:0032998Fc-epsilon receptor I complex0.0467895094059812
GO:0032997Fc receptor complex0.0467895094059812
GO:0004346glucose-6-phosphatase activity0.0467895094059812



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>


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)
MA0003.10.00161113
MA0004.10.375588
MA0006.10.0114667
MA0007.10.0419512
MA0009.10.639996
MA0014.12.3423e-07
MA0017.11.19651
MA0019.10.906154
MA0024.10.0753188
MA0025.10.216859
MA0027.11.46842
MA0028.10.00431859
MA0029.10.512665
MA0030.10.0697141
MA0031.10.209661
MA0038.10.168638
MA0040.10.323943
MA0041.10.109508
MA0042.10.094176
MA0043.10.138312
MA0046.10.108663
MA0048.10.0465273
MA0050.10.301295
MA0051.10.178727
MA0052.10.333425
MA0055.10.205301
MA0056.10
MA0057.10.11741
MA0058.10.0392724
MA0059.10.302483
MA0060.10.0126443
MA0061.10.62329
MA0063.10
MA0066.10.0583606
MA0067.10.291218
MA0068.10.184052
MA0069.10.101892
MA0070.10.0976374
MA0071.10.16292
MA0072.10.0939953
MA0073.10.00055576
MA0074.10.969662
MA0076.10.118159
MA0077.10.288075
MA0078.10.218633
MA0081.11.59619
MA0083.11.36382
MA0084.10.549913
MA0087.10.11655
MA0088.10.0276579
MA0089.10
MA0090.10.288982
MA0091.10.868165
MA0092.10.892987
MA0093.10.240783
MA0095.10
MA0098.10
MA0100.10.638724
MA0101.10.916949
MA0103.10.185531
MA0105.10.350288
MA0106.10.709104
MA0107.10.763618
MA0108.20.350322
MA0109.10
MA0111.10.0964844
MA0113.10.0750079
MA0114.10.608248
MA0115.10.139761
MA0116.10.981274
MA0117.10.123504
MA0119.10.328981
MA0122.10.133389
MA0124.10.707965
MA0125.10.206743
MA0130.10
MA0131.10.0320964
MA0132.10
MA0133.10
MA0135.10.477019
MA0136.11.0604
MA0139.10.012588
MA0140.10.638334
MA0141.10.355331
MA0142.10.195956
MA0143.11.80294
MA0144.10.345217
MA0145.10.0906084
MA0146.17.82473e-05
MA0147.10.115453
MA0148.10.25546
MA0149.10.020977
MA0062.20.0181787
MA0035.20.114558
MA0039.25.48978e-06
MA0138.20.0303213
MA0002.21.69855
MA0137.20.029622
MA0104.20.0717574
MA0047.20.167788
MA0112.20.128355
MA0065.20.236232
MA0150.10.198231
MA0151.10
MA0152.10.561052
MA0153.10.166956
MA0154.10.580912
MA0155.10.0270672
MA0156.10.316331
MA0157.10.379918
MA0158.10
MA0159.10.0772324
MA0160.10.261345
MA0161.10
MA0162.16.21749e-05
MA0163.10.00965929
MA0164.10.750181
MA0080.22.15348
MA0018.20.0555964
MA0099.20.530212
MA0079.21.76742e-07
MA0102.22.47226
MA0258.10.070928
MA0259.10.351917
MA0442.10
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