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MCL coexpression mm9:290: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000062!4.46e-13!266;UBERON:0000466!1.82e-12!79;UBERON:0003886!4.50e-10!38;UBERON:0002553!1.45e-09!39;UBERON:0002323!2.41e-09!37;UBERON:0004458!2.41e-09!37;UBERON:0003135!4.42e-09!15;UBERON:0000467!9.51e-09!308;UBERON:0000480!9.51e-09!308;UBERON:0000473!3.33e-08!14;UBERON:0003101!3.39e-08!16;UBERON:0000079!3.39e-08!16;UBERON:0001264!4.72e-08!12;UBERON:0005177!5.92e-08!79;UBERON:0000464!3.00e-07!57;UBERON:0004176!5.20e-07!17;UBERON:0009196!5.20e-07!17;UBERON:0009117!5.20e-07!17
|tfbs_overrepresentation_for_novel_motifs=0.251516,1.88777,0.061087,1.05672,0.0248591,0.324459,0.453786,0.943591,0.455649,0.073313,0.779211,0.141272,1.27777,0.472235,0.288144,0,0.288299,0.0229696,0.374905,1.98816,0.0473293,0.508103,0.155233,0.772561,0.0641363,0.17289,0.553762,0.716363,0.617072,0.572215,0.101869,0.367297,0.0224505,0.157123,0.120923,0.0670144,0.0203772,0.139162,3.17349,0.0111719,0.102492,0.694989,1.04922,1.67318,0.723503,0.0859418,0.230231,0.375164,0.839,0.977989,0.27523,0.190239,1.03008,0.485586,0.500658,0.483088,1.0158,0.417144,0.176454,0.158905,0.351242,0.196469,1.07327,0.266898,0.167068,0.297204,0.621417,0.947606,0.347523,0.807939,0.0538018,0.979268,0.0123689,0.529888,0.0237604,0.917681,0.967769,0.222296,0.337634,3.27135,2.14253,0.301475,0.195512,0.905356,0.430864,1.34795e-05,0.0145099,0.226536,0.233678,1.10402,0.684894,1.10985,0.377655,0.268849,0.01524,1.94631,0.236902,0.379937,0.23041,0.914294,0.0203943,0.367072,0.470627,0.275672,0.274889,0.10429,0.320303,1.7813,0.188807,0.047957,0.52086,0.472153,0.184725,0.125988,0.691366,0.248416,0.021911,0.0930994,0.28928,0.219349,0.534627,0.701195,0.174046,0.221668,0.741383,0.340552,0.909118,0.372164,0.620047,0.274144,0.456151,0.615552,0.593454,0.168644,1.69338,0.00993662,0.0756323,0.342749,0.6661,1.46501,1.07314,0.625675,0.181758,0.980547,0.270089,1.14994,0.232424,1.42588,0.0766814,0.261542,1.10694,0.000196948,1.22153,0.843706,0.168063,0.558342,0.1909,0.567187,0.0708891,0.0755084,0.674799,2.87313,0.340904,0.515877,0.26765,1.51762,0.0891063,1.9896,0.000565944
|tfbs_overrepresentation_jaspar=MA0003.1;0.00536539,MA0004.1;1.05837,MA0006.1;0.116541,MA0007.1;1.00725,MA0009.1;0.388771,MA0014.1;0.651804,MA0017.1;0.141194,MA0019.1;0.248074,MA0024.1;0.353393,MA0025.1;0.589418,MA0027.1;1.95996,MA0028.1;0.0307479,MA0029.1;0.336166,MA0030.1;0.341346,MA0031.1;0.313542,MA0038.1;0.17284,MA0040.1;0.399043,MA0041.1;1.7128,MA0042.1;0.763466,MA0043.1;0.469769,MA0046.1;0.418434,MA0048.1;0.0102452,MA0050.1;0.111159,MA0051.1;0.178537,MA0052.1;1.04609,MA0055.1;4.32176,MA0056.1;0,MA0057.1;0.830691,MA0058.1;1.13788,MA0059.1;0.781081,MA0060.1;0.0114726,MA0061.1;0.380864,MA0063.1;0,MA0066.1;0.165937,MA0067.1;0.690195,MA0068.1;0.00125863,MA0069.1;0.405974,MA0070.1;0.397975,MA0071.1;0.110717,MA0072.1;1.01402,MA0073.1;2.61935e-06,MA0074.1;1.40232,MA0076.1;0.366346,MA0077.1;0.373365,MA0078.1;0.580287,MA0081.1;4.3683,MA0083.1;0.469091,MA0084.1;0.999346,MA0087.1;0.432564,MA0088.1;0.528211,MA0089.1;0,MA0090.1;1.4101,MA0091.1;0.0979655,MA0092.1;1.41151,MA0093.1;0.573856,MA0095.1;0,MA0098.1;0,MA0100.1;0.137416,MA0101.1;0.467124,MA0103.1;0.629824,MA0105.1;0.0655829,MA0106.1;0.592733,MA0107.1;0.611206,MA0108.2;0.264668,MA0109.1;0,MA0111.1;0.0820143,MA0113.1;0.186674,MA0114.1;0.621133,MA0115.1;1.18986,MA0116.1;0.116358,MA0117.1;0.44472,MA0119.1;0.468378,MA0122.1;1.16707,MA0124.1;0.641584,MA0125.1;0.574947,MA0130.1;0,MA0131.1;0.244817,MA0132.1;0,MA0133.1;0,MA0135.1;0.501131,MA0136.1;0.156089,MA0139.1;0.92028,MA0140.1;0.13735,MA0141.1;0.6904,MA0142.1;0.302401,MA0143.1;0.197439,MA0144.1;1.72089,MA0145.1;0.000439128,MA0146.1;0.00112958,MA0147.1;0.415293,MA0148.1;0.0995133,MA0149.1;0.061026,MA0062.2;0.0226466,MA0035.2;0.140079,MA0039.2;9.91553e-05,MA0138.2;0.239154,MA0002.2;0.114411,MA0137.2;0.681399,MA0104.2;0.272325,MA0047.2;0.172355,MA0112.2;0.41342,MA0065.2;0.415566,MA0150.1;0.598715,MA0151.1;0,MA0152.1;0.172422,MA0153.1;0.515592,MA0154.1;4.00772,MA0155.1;0.332988,MA0156.1;0.159341,MA0157.1;0.278203,MA0158.1;0,MA0159.1;0.0213756,MA0160.1;0.101031,MA0161.1;0,MA0162.1;8.30714e-05,MA0163.1;3.79421,MA0164.1;0.15631,MA0080.2;0.0370406,MA0018.2;0.162257,MA0099.2;1.23234,MA0079.2;5.35013e-05,MA0102.2;1.04989,MA0258.1;0.570617,MA0259.1;0.199296,MA0442.1;0
}}

Latest revision as of 15:02, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:66587470..66587488,+p1@Clu
Mm9::chr14:66590633..66590645,+p@chr14:66590633..66590645
+
Mm9::chr14:66592173..66592205,+p@chr14:66592173..66592205
+
Mm9::chr14:66592188..66592196,-p@chr14:66592188..66592196
-
Mm9::chr14:66592197..66592235,-p@chr14:66592197..66592235
-
Mm9::chr14:66592214..66592233,+p@chr14:66592214..66592233
+
Mm9::chr14:66592237..66592248,-p@chr14:66592237..66592248
-
Mm9::chr14:66592258..66592272,+p@chr14:66592258..66592272
+
Mm9::chr14:66593760..66593815,+p7@Clu
Mm9::chr14:66593765..66593780,-p@chr14:66593765..66593780
-
Mm9::chr14:66594419..66594430,+p@chr14:66594419..66594430
+
Mm9::chr14:66594437..66594457,+p@chr14:66594437..66594457
+
Mm9::chr14:66594462..66594473,+p@chr14:66594462..66594473
+
Mm9::chr14:66594535..66594547,-p@chr14:66594535..66594547
-
Mm9::chr14:66594542..66594553,+p@chr14:66594542..66594553
+
Mm9::chr14:66594600..66594631,-p@chr14:66594600..66594631
-
Mm9::chr14:66594640..66594661,+p@chr14:66594640..66594661
+
Mm9::chr14:66598509..66598546,+p@chr14:66598509..66598546
+
Mm9::chr14:66598548..66598560,+p@chr14:66598548..66598560
+
Mm9::chr14:66598561..66598616,+p@chr14:66598561..66598616
+
Mm9::chr14:66598635..66598645,+p@chr14:66598635..66598645
+
Mm9::chr14:66598655..66598675,+p@chr14:66598655..66598675
+
Mm9::chr14:66598681..66598692,+p@chr14:66598681..66598692
+
Mm9::chr14:66599709..66599729,+p@chr14:66599709..66599729
+
Mm9::chr14:66599738..66599767,+p@chr14:66599738..66599767
+
Mm9::chr14:66599741..66599750,-p@chr14:66599741..66599750
-
Mm9::chr14:66600252..66600263,+p@chr14:66600252..66600263
+
Mm9::chr4:49572851..49572855,+p@chr4:49572851..49572855
+
Mm9::chr9:55244242..55244243,+p@chr9:55244242..55244243
+


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
organ4.46e-13266
immaterial anatomical entity1.82e-1279
body cavity precursor4.50e-1038
anatomical cavity1.45e-0939
body cavity2.41e-0937
body cavity or lining2.41e-0937
male reproductive organ4.42e-0915
anatomical system9.51e-09308
anatomical group9.51e-09308
testis3.33e-0814
male organism3.39e-0816
male reproductive system3.39e-0816
pancreas4.72e-0812
trunk region element5.92e-0879
anatomical space3.00e-0757
external genitalia5.20e-0717
indifferent external genitalia5.20e-0717
indifferent gonad5.20e-0717


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)
MA0003.10.00536539
MA0004.11.05837
MA0006.10.116541
MA0007.11.00725
MA0009.10.388771
MA0014.10.651804
MA0017.10.141194
MA0019.10.248074
MA0024.10.353393
MA0025.10.589418
MA0027.11.95996
MA0028.10.0307479
MA0029.10.336166
MA0030.10.341346
MA0031.10.313542
MA0038.10.17284
MA0040.10.399043
MA0041.11.7128
MA0042.10.763466
MA0043.10.469769
MA0046.10.418434
MA0048.10.0102452
MA0050.10.111159
MA0051.10.178537
MA0052.11.04609
MA0055.14.32176
MA0056.10
MA0057.10.830691
MA0058.11.13788
MA0059.10.781081
MA0060.10.0114726
MA0061.10.380864
MA0063.10
MA0066.10.165937
MA0067.10.690195
MA0068.10.00125863
MA0069.10.405974
MA0070.10.397975
MA0071.10.110717
MA0072.11.01402
MA0073.12.61935e-06
MA0074.11.40232
MA0076.10.366346
MA0077.10.373365
MA0078.10.580287
MA0081.14.3683
MA0083.10.469091
MA0084.10.999346
MA0087.10.432564
MA0088.10.528211
MA0089.10
MA0090.11.4101
MA0091.10.0979655
MA0092.11.41151
MA0093.10.573856
MA0095.10
MA0098.10
MA0100.10.137416
MA0101.10.467124
MA0103.10.629824
MA0105.10.0655829
MA0106.10.592733
MA0107.10.611206
MA0108.20.264668
MA0109.10
MA0111.10.0820143
MA0113.10.186674
MA0114.10.621133
MA0115.11.18986
MA0116.10.116358
MA0117.10.44472
MA0119.10.468378
MA0122.11.16707
MA0124.10.641584
MA0125.10.574947
MA0130.10
MA0131.10.244817
MA0132.10
MA0133.10
MA0135.10.501131
MA0136.10.156089
MA0139.10.92028
MA0140.10.13735
MA0141.10.6904
MA0142.10.302401
MA0143.10.197439
MA0144.11.72089
MA0145.10.000439128
MA0146.10.00112958
MA0147.10.415293
MA0148.10.0995133
MA0149.10.061026
MA0062.20.0226466
MA0035.20.140079
MA0039.29.91553e-05
MA0138.20.239154
MA0002.20.114411
MA0137.20.681399
MA0104.20.272325
MA0047.20.172355
MA0112.20.41342
MA0065.20.415566
MA0150.10.598715
MA0151.10
MA0152.10.172422
MA0153.10.515592
MA0154.14.00772
MA0155.10.332988
MA0156.10.159341
MA0157.10.278203
MA0158.10
MA0159.10.0213756
MA0160.10.101031
MA0161.10
MA0162.18.30714e-05
MA0163.13.79421
MA0164.10.15631
MA0080.20.0370406
MA0018.20.162257
MA0099.21.23234
MA0079.25.35013e-05
MA0102.21.04989
MA0258.10.570617
MA0259.10.199296
MA0442.10
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