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MCL coexpression mm9:1205: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000489!3.58e-15!21;UBERON:0001008!9.67e-15!19;UBERON:0006554!6.93e-14!18;UBERON:0002113!2.20e-10!14;UBERON:0003918!2.20e-10!14;UBERON:0011143!2.20e-10!14;UBERON:0005095!2.20e-10!14;UBERON:0007687!2.20e-10!14;UBERON:0000474!2.02e-09!9;UBERON:0003102!1.32e-08!22;UBERON:0003134!1.93e-08!8;UBERON:0002102!4.69e-08!7;UBERON:0004710!4.69e-08!7;UBERON:0005419!4.69e-08!7;UBERON:0005417!4.69e-08!7;UBERON:0005729!4.69e-08!7;UBERON:0000026!1.40e-07!12;UBERON:0004708!1.40e-07!12;UBERON:0002101!1.40e-07!12;UBERON:0004357!1.40e-07!12;UBERON:0004347!1.40e-07!12;UBERON:0005732!1.40e-07!12;UBERON:0005733!1.40e-07!12;UBERON:0005156!2.87e-07!26;UBERON:0000990!2.87e-07!26;UBERON:0003100!3.99e-07!11;UBERON:0004175!8.49e-07!9;UBERON:0010708!9.34e-07!8;UBERON:0010707!9.77e-07!13
|ontology_enrichment_uberon=UBERON:0000489!3.58e-15!21;UBERON:0001008!9.67e-15!19;UBERON:0006554!6.93e-14!18;UBERON:0002113!2.20e-10!14;UBERON:0003918!2.20e-10!14;UBERON:0011143!2.20e-10!14;UBERON:0005095!2.20e-10!14;UBERON:0007687!2.20e-10!14;UBERON:0000474!2.02e-09!9;UBERON:0003102!1.32e-08!22;UBERON:0003134!1.93e-08!8;UBERON:0002102!4.69e-08!7;UBERON:0004710!4.69e-08!7;UBERON:0005419!4.69e-08!7;UBERON:0005417!4.69e-08!7;UBERON:0005729!4.69e-08!7;UBERON:0000026!1.40e-07!12;UBERON:0004708!1.40e-07!12;UBERON:0002101!1.40e-07!12;UBERON:0004357!1.40e-07!12;UBERON:0004347!1.40e-07!12;UBERON:0005732!1.40e-07!12;UBERON:0005733!1.40e-07!12;UBERON:0005156!2.87e-07!26;UBERON:0000990!2.87e-07!26;UBERON:0003100!3.99e-07!11;UBERON:0004175!8.49e-07!9;UBERON:0010708!9.34e-07!8;UBERON:0010707!9.77e-07!13
|tfbs_overrepresentation_for_novel_motifs=1.11639,0.161863,1.05921,0.480627,0.299217,0.495263,1.43443,0.206208,1.15776,0.219671,1.34037,0.575086,0.206435,1.46059,0.315771,0,0.795315,0.792229,0.19222,0.731589,0.374752,0.08187,0.598814,0.29769,1.07577,1.51917,0.184473,0.516511,0.911169,0.145661,0.50223,0.897561,0.289148,0.498917,0.316253,0.101236,1.40094,1.40099,0.258564,0.652422,0.800988,1.26538,0.54842,0.317766,0.822425,0.469348,1.70029,0.532496,0.0609361,0.347313,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,0.176152,0.604914,0.877332,1.59614,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.21183,1.02583,1.09164,0.507615,0.159969,0.166511,0.703064,0.859987,0.378988,0.212973,1.90329,0.663039,0.200155,0.975495,0.0369809,0.042613,1.41216,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.203879,0.913319,1.70082,0.127063,0.7665,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.998363,0.376549,0.430942,1.02459,0.380122,1.35148,1.27206,0.293461,0.187586,0.484437,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,3.6156,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.0806013,0.446555,1.26843,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,1.81619,0.507927,0.717753,2.03691,0.448938,0.300961,0.147909,0.256263,1.04192,0.681896,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.227149
|tfbs_overrepresentation_for_novel_motifs=1.11639,0.161863,1.05921,0.480627,0.299217,0.495263,1.43443,0.206208,1.15776,0.219671,1.34037,0.575086,0.206435,1.46059,0.315771,0,0.795315,0.792229,0.19222,0.731589,0.374752,0.08187,0.598814,0.29769,1.07577,1.51917,0.184473,0.516511,0.911169,0.145661,0.50223,0.897561,0.289148,0.498917,0.316253,0.101236,1.40094,1.40099,0.258564,0.652422,0.800988,1.26538,0.54842,0.317766,0.822425,0.469348,1.70029,0.532496,0.0609361,0.347313,0.777641,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,0.56214,0.176152,0.604914,0.877332,1.59614,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.21183,1.02583,1.09164,0.507615,0.159969,0.166511,0.703064,0.859987,0.378988,0.212973,1.90329,0.663039,0.200155,0.975495,0.0369809,0.042613,1.41216,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.203879,0.913319,1.70082,0.127063,0.7665,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.998363,0.376549,0.430942,1.02459,0.380122,1.35148,1.27206,0.293461,0.187586,0.484437,0.796633,0.757997,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,3.6156,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.0806013,0.446555,1.26843,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,1.81619,0.507927,0.717753,2.03691,0.448938,0.300961,0.147909,0.256263,1.04192,0.681896,0.619892,1.12411,0.655955,0.327731,0.435579,0.446272,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.227149
|tfbs_overrepresentation_jaspar=MA0003.1;0.54119,MA0004.1;0.481116,MA0006.1;0.837454,MA0007.1;0.465969,MA0009.1;0.92425,MA0014.1;0.222567,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;1.04397,MA0042.1;1.79544,MA0043.1;1.02178,MA0046.1;2.20556,MA0048.1;0.128106,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;0.362005,MA0056.1;0,MA0057.1;1.23731,MA0058.1;0.384683,MA0059.1;0.397033,MA0060.1;0.656954,MA0061.1;0.261749,MA0063.1;0,MA0066.1;0.616444,MA0067.1;1.27078,MA0068.1;0.771749,MA0069.1;0.945354,MA0070.1;0.93557,MA0071.1;0.519509,MA0072.1;0.927016,MA0073.1;0.046559,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;0.285759,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;2.88877,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;0.719313,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;0.202522,MA0140.1;0.568252,MA0141.1;0.368264,MA0142.1;0.814115,MA0143.1;0.665982,MA0144.1;0.262477,MA0145.1;0.0910975,MA0146.1;0.0256827,MA0147.1;0.274511,MA0148.1;0.49752,MA0149.1;0.411562,MA0062.2;0.167299,MA0035.2;0.573016,MA0039.2;0.113749,MA0138.2;0.727395,MA0002.2;0.205289,MA0137.2;0.365364,MA0104.2;0.218974,MA0047.2;0.626803,MA0112.2;0.0910939,MA0065.2;0.0914071,MA0150.1;0.465855,MA0151.1;0,MA0152.1;0.626912,MA0153.1;1.07519,MA0154.1;0.792589,MA0155.1;0.102995,MA0156.1;0.356017,MA0157.1;0.781683,MA0158.1;0,MA0159.1;0.776527,MA0160.1;0.50056,MA0161.1;0,MA0162.1;0.127623,MA0163.1;0.28052,MA0164.1;0.600609,MA0080.2;0.343316,MA0018.2;0.610433,MA0099.2;0.721008,MA0079.2;0.323753,MA0102.2;1.65195,MA0258.1;0.246285,MA0259.1;0.26402,MA0442.1;0
}}
}}

Revision as of 12:58, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr6:52184816..52184824,-p@chr6:52184816..52184824
-
Mm9::chr6:52184880..52184893,-p6@Hoxa10
Mm9::chr6:52184901..52184959,-p2@Hoxa10
Mm9::chr6:52190467..52190500,-p1@Hoxa10
Mm9::chr6:52190858..52190873,-p4@Hoxa10
Mm9::chr6:52195964..52195986,+p2@Hoxa11as
Mm9::chr6:52195994..52196011,+p1@ENSMUST00000141850


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
cavitated compound organ3.58e-1521
renal system9.67e-1519
urinary system structure6.93e-1418
kidney2.20e-1014
kidney mesenchyme2.20e-1014
upper urinary tract2.20e-1014
kidney rudiment2.20e-1014
kidney field2.20e-1014
female reproductive system2.02e-099
surface structure1.32e-0822
female reproductive organ1.93e-088
forelimb4.69e-087
pectoral appendage4.69e-087
pectoral appendage bud4.69e-087
forelimb bud4.69e-087
forelimb/pectoral fin field4.69e-087
appendage1.40e-0712
paired limb/fin1.40e-0712
limb1.40e-0712
paired limb/fin bud1.40e-0712
limb bud1.40e-0712
limb/fin field1.40e-0712
limb field1.40e-0712
reproductive structure2.87e-0726
reproductive system2.87e-0726
female organism3.99e-0711
internal genitalia8.49e-079
pectoral complex9.34e-078
appendage girdle complex9.77e-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)
MA0003.10.54119
MA0004.10.481116
MA0006.10.837454
MA0007.10.465969
MA0009.10.92425
MA0014.10.222567
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
MA0041.11.04397
MA0042.11.79544
MA0043.11.02178
MA0046.12.20556
MA0048.10.128106
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.362005
MA0056.10
MA0057.11.23731
MA0058.10.384683
MA0059.10.397033
MA0060.10.656954
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.10.771749
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.10.046559
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.10.285759
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
MA0105.12.88877
MA0106.10.677988
MA0107.10.342432
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.10.719313
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
MA0139.10.202522
MA0140.10.568252
MA0141.10.368264
MA0142.10.814115
MA0143.10.665982
MA0144.10.262477
MA0145.10.0910975
MA0146.10.0256827
MA0147.10.274511
MA0148.10.49752
MA0149.10.411562
MA0062.20.167299
MA0035.20.573016
MA0039.20.113749
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.20.0910939
MA0065.20.0914071
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.792589
MA0155.10.102995
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.776527
MA0160.10.50056
MA0161.10
MA0162.10.127623
MA0163.10.28052
MA0164.10.600609
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.20.323753
MA0102.21.65195
MA0258.10.246285
MA0259.10.26402
MA0442.10
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