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MCL coexpression mm9:1173: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007100!8.06e-10!18;UBERON:0000948!8.06e-10!18;UBERON:0005498!8.06e-10!18;UBERON:0004140!8.06e-10!18;UBERON:0009881!8.06e-10!18;UBERON:0004141!8.06e-10!18;UBERON:0003084!8.06e-10!18;UBERON:0007005!8.06e-10!18;UBERON:0004139!8.06e-10!18;UBERON:0004291!8.06e-10!18;UBERON:0004872!1.79e-09!33;UBERON:0004535!1.35e-07!23;UBERON:0001009!1.35e-07!23
|ontology_enrichment_uberon=UBERON:0007100!8.06e-10!18;UBERON:0000948!8.06e-10!18;UBERON:0005498!8.06e-10!18;UBERON:0004140!8.06e-10!18;UBERON:0009881!8.06e-10!18;UBERON:0004141!8.06e-10!18;UBERON:0003084!8.06e-10!18;UBERON:0007005!8.06e-10!18;UBERON:0004139!8.06e-10!18;UBERON:0004291!8.06e-10!18;UBERON:0004872!1.79e-09!33;UBERON:0004535!1.35e-07!23;UBERON:0001009!1.35e-07!23
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.161863,1.05921,0.480627,0.810002,0.495263,0.587291,0.594722,1.15776,0.478312,0.542749,0.575086,0.59526,0.599731,0.315771,0,0.795315,0.291368,1.06769,0.731589,0.374752,0.586604,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.911169,0.446946,0.50223,0.897561,0.78719,0.498917,0.316253,0.468714,0.766323,0.57142,0.717242,0.652422,0.800988,0.507468,0.54842,0.317766,0.277561,0.469348,0.714592,0.532496,0.219744,0.347313,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,1.00328,0.604914,0.877332,0.664501,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,1.14464,0.611537,1.09164,0.17012,0.159969,0.166511,0.703064,0.859987,0.98764,0.212973,0.812889,0.663039,0.580284,0.975495,0.146394,0.164297,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.589174,0.913319,0.71485,0.79664,0.7665,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,0.430942,1.02459,0.380122,0.547992,1.27206,0.293461,0.735764,2.10934,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.275843,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.147909,0.927167,1.04192,0.243291,0.619892,1.12411,0.655955,0.874089,1.11101,0.446272,1.25393,0.974632,0.864173,1.09603,0.767269,0.612377,0.278874,0.573477,1.42871
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.161863,1.05921,0.480627,0.810002,0.495263,0.587291,0.594722,1.15776,0.478312,0.542749,0.575086,0.59526,0.599731,0.315771,0,0.795315,0.291368,1.06769,0.731589,0.374752,0.586604,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.911169,0.446946,0.50223,0.897561,0.78719,0.498917,0.316253,0.468714,0.766323,0.57142,0.717242,0.652422,0.800988,0.507468,0.54842,0.317766,0.277561,0.469348,0.714592,0.532496,0.219744,0.347313,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,1.00328,0.604914,0.877332,0.664501,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,1.14464,0.611537,1.09164,0.17012,0.159969,0.166511,0.703064,0.859987,0.98764,0.212973,0.812889,0.663039,0.580284,0.975495,0.146394,0.164297,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.589174,0.913319,0.71485,0.79664,0.7665,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.376549,0.430942,1.02459,0.380122,0.547992,1.27206,0.293461,0.735764,2.10934,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.275843,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.147909,0.927167,1.04192,0.243291,0.619892,1.12411,0.655955,0.874089,1.11101,0.446272,1.25393,0.974632,0.864173,1.09603,0.767269,0.612377,0.278874,0.573477,1.42871
|tfbs_overrepresentation_jaspar=MA0003.1;0.339775,MA0004.1;0.481116,MA0006.1;0.311391,MA0007.1;0.465969,MA0009.1;0.92425,MA0014.1;0.0886247,MA0017.1;0.337808,MA0019.1;0.740036,MA0024.1;0.880057,MA0025.1;1.15921,MA0027.1;2.57545,MA0028.1;0.321735,MA0029.1;0.858105,MA0030.1;0.864739,MA0031.1;0.828781,MA0038.1;0.62758,MA0040.1;0.936879,MA0041.1;0.404721,MA0042.1;0.391504,MA0043.1;1.02178,MA0046.1;0.960497,MA0048.1;0.40238,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;0.648475,MA0056.1;0,MA0057.1;0.117936,MA0058.1;0.384683,MA0059.1;0.397033,MA0060.1;1.22438,MA0061.1;0.261749,MA0063.1;0,MA0066.1;1.49567,MA0067.1;1.27078,MA0068.1;0.385183,MA0069.1;0.945354,MA0070.1;0.93557,MA0071.1;0.519509,MA0072.1;0.927016,MA0073.1;0.00782298,MA0074.1;0.580087,MA0076.1;0.356883,MA0077.1;0.905143,MA0078.1;0.670113,MA0081.1;0.420276,MA0083.1;1.02098,MA0084.1;1.59945,MA0087.1;0.977537,MA0088.1;0.0841779,MA0089.1;0,MA0090.1;0.446539,MA0091.1;0.494398,MA0092.1;0.446857,MA0093.1;0.329976,MA0095.1;0,MA0098.1;0,MA0100.1;0.568369,MA0101.1;0.406019,MA0103.1;0.348572,MA0105.1;0.162418,MA0106.1;0.677988,MA0107.1;0.342432,MA0108.2;0.763162,MA0109.1;0,MA0111.1;0.460823,MA0113.1;0.649407,MA0114.1;0.259463,MA0115.1;1.0246,MA0116.1;0.311187,MA0117.1;0.992087,MA0119.1;0.40661,MA0122.1;1.01209,MA0124.1;1.21735,MA0125.1;1.14291,MA0130.1;0,MA0131.1;0.735438,MA0132.1;0,MA0133.1;0,MA0135.1;1.05845,MA0136.1;0.600242,MA0139.1;0.585936,MA0140.1;0.568252,MA0141.1;0.964041,MA0142.1;0.814115,MA0143.1;0.665982,MA0144.1;1.33652,MA0145.1;0.631666,MA0146.1;0.108739,MA0147.1;0.274511,MA0148.1;1.24416,MA0149.1;0.411562,MA0062.2;0.167299,MA0035.2;0.573016,MA0039.2;0.790799,MA0138.2;0.727395,MA0002.2;0.592533,MA0137.2;0.365364,MA0104.2;0.218974,MA0047.2;0.626803,MA0112.2;0.304722,MA0065.2;0.633155,MA0150.1;0.465855,MA0151.1;0,MA0152.1;0.626912,MA0153.1;1.07519,MA0154.1;0.397336,MA0155.1;0.687925,MA0156.1;0.356017,MA0157.1;0.781683,MA0158.1;0,MA0159.1;1.4173,MA0160.1;0.50056,MA0161.1;0,MA0162.1;0.127623,MA0163.1;0.82914,MA0164.1;1.46244,MA0080.2;0.343316,MA0018.2;0.610433,MA0099.2;0.721008,MA0079.2;0.0190804,MA0102.2;1.65195,MA0258.1;0.246285,MA0259.1;0.26402,MA0442.1;0
}}
}}

Revision as of 12:55, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr19:40439533..40439550,-p@chr19:40439533..40439550
-
Mm9::chr19:40588204..40588282,-p1@Sorbs1
Mm9::chr1:75356896..75356913,+p1@Des
Mm9::chr1:75358757..75358798,-p@chr1:75358757..75358798
-
Mm9::chr1:75363386..75363422,-p@chr1:75363386..75363422
-
Mm9::chr1:75363702..75363741,+p@chr1:75363702..75363741
+
Mm9::chr2:72135952..72135969,+p9@B230120H23Rik


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:0043149stress fiber formation0.0336303655618914
GO:0048041focal adhesion formation0.0336303655618914
GO:0007010cytoskeleton organization and biogenesis0.0336303655618914
GO:0005626insoluble fraction0.0336303655618914
GO:0051017actin filament bundle formation0.0336303655618914
GO:0005158insulin receptor binding0.0336303655618914
GO:0044430cytoskeletal part0.0336303655618914
GO:0004709MAP kinase kinase kinase activity0.0336303655618914
GO:0001725stress fiber0.0336303655618914
GO:0032432actin filament bundle0.0336303655618914
GO:0008286insulin receptor signaling pathway0.0336303655618914
GO:0005913cell-cell adherens junction0.0336303655618914
GO:0015758glucose transport0.0336303655618914
GO:0008645hexose transport0.0336303655618914
GO:0042383sarcolemma0.0336303655618914
GO:0015749monosaccharide transport0.0336303655618914
GO:0030018Z disc0.0336303655618914
GO:0005924cell-substrate adherens junction0.0336303655618914
GO:0031674I band0.0336303655618914
GO:0045121lipid raft0.0336303655618914
GO:0030055cell-matrix junction0.0336303655618914
GO:0005856cytoskeleton0.0350829367583903
GO:0007015actin filament organization0.0350829367583903
GO:0004702receptor signaling protein serine/threonine kinase activity0.0373363523487017
GO:0019901protein kinase binding0.0373363523487017
GO:0032403protein complex binding0.0373363523487017
GO:0019900kinase binding0.0373363523487017
GO:0005912adherens junction0.040279051340258
GO:0008643carbohydrate transport0.040279051340258
GO:0007160cell-matrix adhesion0.040279051340258
GO:0006996organelle organization and biogenesis0.040279051340258
GO:0030017sarcomere0.040279051340258
GO:0031589cell-substrate adhesion0.040279051340258
GO:0044449contractile fiber part0.040279051340258
GO:0016323basolateral plasma membrane0.040279051340258
GO:0030016myofibril0.0418958932992277
GO:0043292contractile fiber0.0418958932992277
GO:0005057receptor signaling protein activity0.0453981741645729
GO:0005200structural constituent of cytoskeleton0.0453981741645729



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)
MA0003.10.339775
MA0004.10.481116
MA0006.10.311391
MA0007.10.465969
MA0009.10.92425
MA0014.10.0886247
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
MA0048.10.40238
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.648475
MA0056.10
MA0057.10.117936
MA0058.10.384683
MA0059.10.397033
MA0060.11.22438
MA0061.10.261749
MA0063.10
MA0066.11.49567
MA0067.11.27078
MA0068.10.385183
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.10.00782298
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
MA0103.10.348572
MA0105.10.162418
MA0106.10.677988
MA0107.10.342432
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
MA0139.10.585936
MA0140.10.568252
MA0141.10.964041
MA0142.10.814115
MA0143.10.665982
MA0144.11.33652
MA0145.10.631666
MA0146.10.108739
MA0147.10.274511
MA0148.11.24416
MA0149.10.411562
MA0062.20.167299
MA0035.20.573016
MA0039.20.790799
MA0138.20.727395
MA0002.20.592533
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.20.304722
MA0065.20.633155
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.397336
MA0155.10.687925
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.11.4173
MA0160.10.50056
MA0161.10
MA0162.10.127623
MA0163.10.82914
MA0164.11.46244
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.20.0190804
MA0102.21.65195
MA0258.10.246285
MA0259.10.26402
MA0442.10
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