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MCL coexpression mm9:672: Difference between revisions

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{{MCL_coexpression_mm9
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activity;0.00640920285549399;107328!GO:0000394;RNA splicing, via endonucleolytic cleavage and ligation;0.00640920285549399;107328!GO:0006388;tRNA 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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!1.33e-07!46
|tfbs_overrepresentation_for_novel_motifs=0.29262,0.140695,0.269904,0.329881,0.176699,0.342839,0.425757,0.345089,0.362206,0.208174,0.385334,0.414631,0.106288,0.437133,0.189961,0,0.619876,0.170475,0.096222,0.171249,0.238546,0.0281659,1.11256,0.175485,0.276437,1.16974,0.304017,0.361771,0.611503,0.231659,0.349031,0.717576,0.168723,0.0786762,0.19035,0.308746,0.161521,0.411296,0.873942,0.391645,0.173534,0.353696,0.104243,0.191571,0.195622,0.319944,0.543674,0.376103,0.081888,0.61724,0.603113,0.488021,0.220536,0.855661,0.87275,0.443782,0.223087,0.40287,0.0851299,1.12465,0.698157,0.496904,0.383763,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,0.355763,0.126035,0.905636,0.582533,0.258161,0.0786324,0.532872,0.681539,0.679143,0.357936,1.53784,0.495545,0.682423,0.792744,0.123451,0.143445,0.860726,0.548334,1.51408,1.07554,0.797601,0.730003,0.181374,0.141946,0.404817,0.694736,0.732731,0.543917,0.197581,0.161581,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.372438,0.246223,0.240055,0.286453,0.840348,0.243062,0.390066,1.0825,0.512539,0.170188,0.333247,0.621127,0.931584,2.10436,0.572279,0.464505,0.532013,1.13603,0.685116,1.10612,0.723425,1.00525,0.183744,0.821997,0.864341,0.976125,0.456508,1.10385,0.115066,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,0.596462,0.93276,0.546641,1.84176,0.302077,0.178088,0.507931,0.103135,0.857198,0.133365,1.15434,0.93735,0.488969,0.199652,0.290467,0.299755,1.06466,0.791909,0.685546,0.776587,0.593295,0.448733,0.160658,0.413167,0.451293
|tfbs_overrepresentation_jaspar=MA0003.1;0.0374387,MA0004.1;0.879856,MA0006.1;0.547312,MA0007.1;0.316976,MA0009.1;0.743257,MA0014.1;0.0199707,MA0017.1;0.598706,MA0019.1;0.567591,MA0024.1;0.70077,MA0025.1;0.971686,MA0027.1;2.37948,MA0028.1;0.194782,MA0029.1;0.679737,MA0030.1;0.686088,MA0031.1;0.651724,MA0038.1;0.462726,MA0040.1;0.755433,MA0041.1;0.263922,MA0042.1;0.252679,MA0043.1;0.837621,MA0046.1;0.778239,MA0048.1;0.199479,MA0050.1;0.365212,MA0051.1;0.471092,MA0052.1;0.76328,MA0055.1;0.0494654,MA0056.1;0,MA0057.1;0.181039,MA0058.1;1.27846,MA0059.1;0.257372,MA0060.1;0.395347,MA0061.1;0.884293,MA0063.1;0,MA0066.1;0.452472,MA0067.1;1.08124,MA0068.1;0.187364,MA0069.1;0.76361,MA0070.1;0.75417,MA0071.1;0.364454,MA0072.1;0.745922,MA0073.1;0.000531005,MA0074.1;0.419185,MA0076.1;0.223625,MA0077.1;0.724865,MA0078.1;0.502121,MA0081.1;0.277253,MA0083.1;0.836845,MA0084.1;1.4063,MA0087.1;0.794721,MA0088.1;0.28966,MA0089.1;0,MA0090.1;0.299987,MA0091.1;0.342071,MA0092.1;0.300264,MA0093.1;1.10424,MA0095.1;0,MA0098.1;0,MA0100.1;1.05226,MA0101.1;0.73212,MA0103.1;0.216742,MA0105.1;0.556739,MA0106.1;0.509454,MA0107.1;0.607721,MA0108.2;0.589413,MA0109.1;0,MA0111.1;0.312463,MA0113.1;1.21288,MA0114.1;0.145642,MA0115.1;0.84036,MA0116.1;0.186271,MA0117.1;0.808813,MA0119.1;0.265536,MA0122.1;0.828211,MA0124.1;1.02871,MA0125.1;0.955734,MA0130.1;0,MA0131.1;1.38377,MA0132.1;0,MA0133.1;0,MA0135.1;0.873285,MA0136.1;0.437601,MA0139.1;0.103495,MA0140.1;0.408417,MA0141.1;0.658164,MA0142.1;0.63775,MA0143.1;0.49828,MA0144.1;0.452699,MA0145.1;0.0329586,MA0146.1;0.0833862,MA0147.1;0.157258,MA0148.1;0.344843,MA0149.1;0.269772,MA0062.2;0.573094,MA0035.2;0.412747,MA0039.2;0.234001,MA0138.2;0.555696,MA0002.2;0.343346,MA0137.2;0.230686,MA0104.2;0.11535,MA0047.2;0.46201,MA0112.2;0.0329566,MA0065.2;0.033123,MA0150.1;0.316876,MA0151.1;0,MA0152.1;0.46211,MA0153.1;0.889592,MA0154.1;0.0529077,MA0155.1;0.154271,MA0156.1;0.222905,MA0157.1;0.606944,MA0158.1;0,MA0159.1;0.165031,MA0160.1;0.347545,MA0161.1;0,MA0162.1;0.609924,MA0163.1;0.0916052,MA0164.1;0.437937,MA0080.2;0.212408,MA0018.2;0.446948,MA0099.2;0.549696,MA0079.2;0.00532751,MA0102.2;1.45844,MA0258.1;0.421574,MA0259.1;0.455671,MA0442.1;0
}}

Latest revision as of 15:42, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:25309931..25309947,+p1@LOC677113
p1@Rps24
Mm9::chr14:76245128..76245154,+p1@Tpt1
Mm9::chr17:24857047..24857063,+p1@Gm10420
p1@Gm5786
p1@Gm8842
p1@Rps2
Mm9::chr19:18001042..18001045,+p@chr19:18001042..18001045
+
Mm9::chr19:51866690..51866693,+p@chr19:51866690..51866693
+
Mm9::chr19:8955322..8955344,-p2@AI462493
Mm9::chr1:88806278..88806282,-p1@ENSMUST00000167233
Mm9::chr5:108329551..108329596,+p1@Gm14217
p1@Rpl5
Mm9::chr9:19732764..19732768,-p1@ENSMUST00000165126
Mm9::chr9:64021171..64021195,+p1@Rpl4
Mm9::chrX:86204522..86204523,+p1@ENSMUST00000121800


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:00086652'-phosphotransferase activity0.00640920285549399
GO:0000394RNA splicing, via endonucleolytic cleavage and ligation0.00640920285549399
GO:0006388tRNA splicing0.00640920285549399



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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
connective tissue1.33e-0746


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)
MA0003.10.0374387
MA0004.10.879856
MA0006.10.547312
MA0007.10.316976
MA0009.10.743257
MA0014.10.0199707
MA0017.10.598706
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
MA0038.10.462726
MA0040.10.755433
MA0041.10.263922
MA0042.10.252679
MA0043.10.837621
MA0046.10.778239
MA0048.10.199479
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.0494654
MA0056.10
MA0057.10.181039
MA0058.11.27846
MA0059.10.257372
MA0060.10.395347
MA0061.10.884293
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.187364
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.10.745922
MA0073.10.000531005
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.28966
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.300264
MA0093.11.10424
MA0095.10
MA0098.10
MA0100.11.05226
MA0101.10.73212
MA0103.10.216742
MA0105.10.556739
MA0106.10.509454
MA0107.10.607721
MA0108.20.589413
MA0109.10
MA0111.10.312463
MA0113.11.21288
MA0114.10.145642
MA0115.10.84036
MA0116.10.186271
MA0117.10.808813
MA0119.10.265536
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.11.38377
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.10.437601
MA0139.10.103495
MA0140.10.408417
MA0141.10.658164
MA0142.10.63775
MA0143.10.49828
MA0144.10.452699
MA0145.10.0329586
MA0146.10.0833862
MA0147.10.157258
MA0148.10.344843
MA0149.10.269772
MA0062.20.573094
MA0035.20.412747
MA0039.20.234001
MA0138.20.555696
MA0002.20.343346
MA0137.20.230686
MA0104.20.11535
MA0047.20.46201
MA0112.20.0329566
MA0065.20.033123
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.0529077
MA0155.10.154271
MA0156.10.222905
MA0157.10.606944
MA0158.10
MA0159.10.165031
MA0160.10.347545
MA0161.10
MA0162.10.609924
MA0163.10.0916052
MA0164.10.437937
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.20.00532751
MA0102.21.45844
MA0258.10.421574
MA0259.10.455671
MA0442.10
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