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MCL coexpression mm9:1132: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000073!9.37e-14!54;UBERON:0001017!6.62e-13!73;UBERON:0010314!9.88e-13!92;UBERON:0001049!1.40e-12!52;UBERON:0005068!1.40e-12!52;UBERON:0006241!1.40e-12!52;UBERON:0007135!1.40e-12!52;UBERON:0001016!2.98e-12!75;UBERON:0004111!4.02e-12!122;UBERON:0000025!4.85e-11!114;UBERON:0000955!5.46e-11!47;UBERON:0006238!5.46e-11!47;UBERON:0002616!1.40e-10!46;UBERON:0004121!2.80e-10!95;UBERON:0000924!2.80e-10!95;UBERON:0006601!2.80e-10!95;UBERON:0002346!1.29e-09!64;UBERON:0003075!1.29e-09!64;UBERON:0007284!1.29e-09!64;UBERON:0002020!2.47e-09!34;UBERON:0010371!1.66e-08!73;UBERON:0003080!2.29e-08!40;UBERON:0007023!2.69e-08!51;UBERON:0003528!5.21e-08!29;UBERON:0002791!5.21e-08!29;UBERON:0001893!5.21e-08!29;UBERON:0002780!6.74e-08!39;UBERON:0001890!6.74e-08!39;UBERON:0006240!6.74e-08!39;UBERON:0000477!2.91e-07!244
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.161863,1.05921,0.480627,0.299217,0.495263,0.587291,0.594722,0.215218,0.219671,0.542749,0.575086,0.206435,0.599731,0.847296,0,0.795315,0.291368,0.19222,0.361892,0.374752,0.988929,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.344372,0.446946,0.50223,0.897561,1.43437,0.166577,0.316253,0.468714,0.279977,0.57142,0.258564,1.89251,0.800988,1.26538,0.0742755,0.317766,0.277561,1.18381,0.714592,0.532496,0.219744,0.347313,1.83068,0.654933,0.431711,1.04034,1.0579,0.606984,0.356236,1.3814,0.522357,0.604914,0.877332,1.59614,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,1.01778,0.21183,0.293368,1.09164,0.97874,0.936963,0.498755,0.703064,0.859987,0.378988,0.212973,0.812889,0.663039,0.200155,0.975495,1.84334,0.667407,0.145788,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.708155,0.237542,0.203879,0.913319,2.85504,0.399703,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.998363,0.982279,0.430942,1.02459,0.380122,0.547992,1.27206,0.293461,0.735764,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,0.702145,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,0.473246,1.16374,0.620831,1.29374,0.0806013,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,1.47713,0.147909,0.256263,1.04192,0.243291,0.619892,1.12411,0.655955,0.874089,0.435579,1.13413,1.25393,0.974632,0.864173,1.09603,0.767269,0.612377,1.3969,0.573477,0.433127
|tfbs_overrepresentation_jaspar=MA0003.1;0.188259,MA0004.1;0.481116,MA0006.1;1.51462,MA0007.1;0.465969,MA0009.1;0.92425,MA0014.1;1.41063,MA0017.1;0.89657,MA0019.1;0.740036,MA0024.1;0.880057,MA0025.1;1.15921,MA0027.1;2.57545,MA0028.1;0.860672,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;1.30252,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;0.362005,MA0056.1;0,MA0057.1;0.376102,MA0058.1;1.77195,MA0059.1;1.02718,MA0060.1;2.67112,MA0061.1;0.724575,MA0063.1;0,MA0066.1;0.616444,MA0067.1;1.27078,MA0068.1;0.121435,MA0069.1;0.945354,MA0070.1;0.93557,MA0071.1;1.29103,MA0072.1;0.927016,MA0073.1;0.152496,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;1.00582,MA0089.1;0,MA0090.1;0.446539,MA0091.1;0.494398,MA0092.1;0.446857,MA0093.1;0.879104,MA0095.1;0,MA0098.1;0,MA0100.1;0.568369,MA0101.1;0.406019,MA0103.1;0.920496,MA0105.1;2.16336,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;0.585936,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;1.57153,MA0147.1;0.753844,MA0148.1;0.49752,MA0149.1;0.411562,MA0062.2;0.967192,MA0035.2;1.40435,MA0039.2;0.557969,MA0138.2;0.727395,MA0002.2;0.205289,MA0137.2;0.365364,MA0104.2;0.624968,MA0047.2;0.626803,MA0112.2;1.05549,MA0065.2;0.305574,MA0150.1;0.465855,MA0151.1;0,MA0152.1;0.626912,MA0153.1;1.07519,MA0154.1;0.397336,MA0155.1;0.336768,MA0156.1;0.356017,MA0157.1;0.781683,MA0158.1;0,MA0159.1;0.284457,MA0160.1;0.50056,MA0161.1;0,MA0162.1;1.26636,MA0163.1;0.116706,MA0164.1;0.600609,MA0080.2;0.343316,MA0018.2;0.610433,MA0099.2;0.721008,MA0079.2;0.86982,MA0102.2;1.65195,MA0258.1;0.246285,MA0259.1;0.729797,MA0442.1;0
}}

Latest revision as of 16:26, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:37948312..37948327,-p5@Ghitm
Mm9::chr14:37948339..37948358,-p3@Ghitm
Mm9::chr1:95374906..95374968,-p@chr1:95374906..95374968
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Mm9::chr4:132895198..132895249,-p1@Wdtc1
Mm9::chr4:137882149..137882220,-p1@Pink1
Mm9::chr4:147278976..147279032,-p2@Mfn2
Mm9::chr9:30234618..30234693,+p1@Snx19


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:0008053mitochondrial fusion0.0325336815862717
GO:0001825blastocyst formation0.0325336815862717
GO:0048284organelle fusion0.0325336815862717



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
regional part of nervous system9.37e-1454
central nervous system6.62e-1373
structure with developmental contribution from neural crest9.88e-1392
neural tube1.40e-1252
neural rod1.40e-1252
future spinal cord1.40e-1252
neural keel1.40e-1252
nervous system2.98e-1275
anatomical conduit4.02e-12122
tube4.85e-11114
brain5.46e-1147
future brain5.46e-1147
regional part of brain1.40e-1046
ectoderm-derived structure2.80e-1095
ectoderm2.80e-1095
presumptive ectoderm2.80e-1095
neurectoderm1.29e-0964
neural plate1.29e-0964
presumptive neural plate1.29e-0964
gray matter2.47e-0934
ecto-epithelium1.66e-0873
anterior neural tube2.29e-0840
adult organism2.69e-0851
brain grey matter5.21e-0829
regional part of telencephalon5.21e-0829
telencephalon5.21e-0829
regional part of forebrain6.74e-0839
forebrain6.74e-0839
future forebrain6.74e-0839
anatomical cluster2.91e-07244


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)
MA0003.10.188259
MA0004.10.481116
MA0006.11.51462
MA0007.10.465969
MA0009.10.92425
MA0014.11.41063
MA0017.10.89657
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.860672
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
MA0048.11.30252
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.362005
MA0056.10
MA0057.10.376102
MA0058.11.77195
MA0059.11.02718
MA0060.12.67112
MA0061.10.724575
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.10.121435
MA0069.10.945354
MA0070.10.93557
MA0071.11.29103
MA0072.10.927016
MA0073.10.152496
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.11.00582
MA0089.10
MA0090.10.446539
MA0091.10.494398
MA0092.10.446857
MA0093.10.879104
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.10.406019
MA0103.10.920496
MA0105.12.16336
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
MA0139.10.585936
MA0140.10.568252
MA0141.10.368264
MA0142.10.814115
MA0143.10.665982
MA0144.10.262477
MA0145.10.0910975
MA0146.11.57153
MA0147.10.753844
MA0148.10.49752
MA0149.10.411562
MA0062.20.967192
MA0035.21.40435
MA0039.20.557969
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.20.624968
MA0047.20.626803
MA0112.21.05549
MA0065.20.305574
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.397336
MA0155.10.336768
MA0156.10.356017
MA0157.10.781683
MA0158.10
MA0159.10.284457
MA0160.10.50056
MA0161.10
MA0162.11.26636
MA0163.10.116706
MA0164.10.600609
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.20.86982
MA0102.21.65195
MA0258.10.246285
MA0259.10.729797
MA0442.10
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