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MCL coexpression mm9:1145: Difference between revisions

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{{MCL_coexpression_mm9
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desumoylation;0.0314688884597356;223870!GO:0017134;fibroblast growth factor binding;0.0314688884597356;74360!GO:0007067;mitosis;0.0314688884597356;20843,17120!GO:0000087;M phase of mitotic cell cycle;0.0314688884597356;20843,17120!GO:0043231;intracellular membrane-bound organelle;0.0314688884597356;20843,74360,223870,17193,66471,17120!GO:0043227;membrane-bound organelle;0.0314688884597356;20843,74360,223870,17193,66471,17120!GO:0000278;mitotic cell cycle;0.0336934334272182;20843,17120!GO:0000279;M phase;0.0336934334272182;20843,17120!GO:0051301;cell division;0.0336934334272182;20843,17120!GO:0022403;cell cycle phase;0.0356650580745101;20843,17120!GO:0043229;intracellular organelle;0.0356650580745101;20843,74360,223870,17193,66471,17120!GO:0043226;organelle;0.0356650580745101;20843,74360,223870,17193,66471,17120!GO:0008543;fibroblast growth factor receptor signaling pathway;0.0411069134803286;74360!GO:0006305;DNA alkylation;0.0411069134803286;17193!GO:0006306;DNA methylation;0.0411069134803286;17193!GO:0000060;protein import into nucleus, translocation;0.0411069134803286;74360!GO:0008630;DNA damage response, signal transduction resulting in induction of apoptosis;0.0416724359350369;17193!GO:0006284;base-excision repair;0.0416724359350369;17193!GO:0006304;DNA modification;0.041911827250545;17193!GO:0019212;phosphatase inhibitor 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|gostat_on_MCL_coexpression=GO:0005634;nucleus;0.0141685794832761;20843,74360,223870,17193,66471,17120!GO:0016926;protein desumoylation;0.0314688884597356;223870!GO:0017134;fibroblast growth factor binding;0.0314688884597356;74360!GO:0007067;mitosis;0.0314688884597356;20843,17120!GO:0000087;M phase of mitotic cell cycle;0.0314688884597356;20843,17120!GO:0043231;intracellular membrane-bound organelle;0.0314688884597356;20843,74360,223870,17193,66471,17120!GO:0043227;membrane-bound organelle;0.0314688884597356;20843,74360,223870,17193,66471,17120!GO:0000278;mitotic cell cycle;0.0336934334272182;20843,17120!GO:0000279;M phase;0.0336934334272182;20843,17120!GO:0051301;cell division;0.0336934334272182;20843,17120!GO:0022403;cell cycle phase;0.0356650580745101;20843,17120!GO:0043229;intracellular organelle;0.0356650580745101;20843,74360,223870,17193,66471,17120!GO:0043226;organelle;0.0356650580745101;20843,74360,223870,17193,66471,17120!GO:0008543;fibroblast growth factor receptor signaling pathway;0.0411069134803286;74360!GO:0006305;DNA alkylation;0.0411069134803286;17193!GO:0006306;DNA methylation;0.0411069134803286;17193!GO:0000060;protein import into nucleus, translocation;0.0411069134803286;74360!GO:0008630;DNA damage response, signal transduction resulting in induction of apoptosis;0.0416724359350369;17193!GO:0006284;base-excision repair;0.0416724359350369;17193!GO:0006304;DNA modification;0.041911827250545;17193!GO:0019212;phosphatase inhibitor activity;0.0421278127593552;66471!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004177!2.01e-09!29;UBERON:0005057!2.01e-09!29;UBERON:0001048!6.72e-09!134;UBERON:0000153!9.78e-08!43;UBERON:0002390!1.44e-07!45;UBERON:0003061!1.44e-07!45;UBERON:0002193!5.10e-07!48;UBERON:0002405!5.10e-07!48
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.369498,0.411716,0.480627,0.299217,0.495263,0.587291,0.206208,0.215218,0.219671,0.542749,0.575086,0.206435,0.599731,0.315771,0,0.795315,0.291368,0.19222,0.731589,0.374752,0.08187,0.598814,0.29769,0.419327,0.62766,0.184473,0.516511,0.344372,0.446946,0.50223,0.897561,0.289148,0.498917,0.316253,0.468714,0.766323,0.57142,0.717242,1.21701,0.295233,0.507468,0.54842,0.317766,0.115244,0.469348,0.714592,0.532496,0.478447,0.347313,0.777641,0.654933,0.851157,1.04034,1.0579,0.606984,0.356236,0.56214,0.522357,0.604914,0.877332,1.59614,0.226529,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.21183,0.293368,1.09164,0.507615,0.482617,0.166511,0.703064,0.859987,0.378988,0.212973,0.812889,0.663039,0.200155,0.975495,0.146394,0.164297,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.254625,0.237542,0.589174,0.913319,1.70082,0.399703,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,1.30996,0.383871,0.376549,0.430942,1.02459,0.990132,0.547992,1.27206,0.293461,0.0501572,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,1.67446,1.32639,0.863723,0.595563,0.903645,1.19345,0.308038,1.00568,1.19218,1.16374,0.620831,1.29374,0.275843,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.886471,0.545091,1.04192,0.243291,0.619892,1.12411,0.655955,0.874089,0.435579,1.98168,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,0.227149
|tfbs_overrepresentation_jaspar=MA0003.1;1.08574,MA0004.1;0.481116,MA0006.1;0.837454,MA0007.1;0.465969,MA0009.1;0.92425,MA0014.1;0.694761,MA0017.1;0.337808,MA0019.1;0.740036,MA0024.1;3.37321,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;1.04397,MA0042.1;1.01509,MA0043.1;1.02178,MA0046.1;0.960497,MA0048.1;0.801219,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;0.362005,MA0056.1;0,MA0057.1;1.80315,MA0058.1;0.384683,MA0059.1;0.397033,MA0060.1;1.90283,MA0061.1;0.261749,MA0063.1;0,MA0066.1;0.616444,MA0067.1;1.27078,MA0068.1;1.25994,MA0069.1;0.945354,MA0070.1;0.93557,MA0071.1;0.519509,MA0072.1;0.927016,MA0073.1;0.845602,MA0074.1;0.580087,MA0076.1;0.938908,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;0.329976,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;0.719313,MA0115.1;1.0246,MA0116.1;2.30533,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;0.72625,MA0145.1;0.0910975,MA0146.1;0.493711,MA0147.1;0.274511,MA0148.1;0.49752,MA0149.1;0.411562,MA0062.2;0.967192,MA0035.2;0.573016,MA0039.2;0.557969,MA0138.2;0.727395,MA0002.2;0.592533,MA0137.2;0.365364,MA0104.2;0.218974,MA0047.2;0.626803,MA0112.2;0.631649,MA0065.2;1.0577,MA0150.1;1.17631,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;0.302441,MA0163.1;1.20194,MA0164.1;0.600609,MA0080.2;0.343316,MA0018.2;0.610433,MA0099.2;0.721008,MA0079.2;1.47363,MA0102.2;1.65195,MA0258.1;0.246285,MA0259.1;0.26402,MA0442.1;0
}}

Latest revision as of 16:28, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr15:97923519..97923568,-p3@Senp1
Mm9::chr3:95733202..95733221,+p1@Anp32e
Mm9::chr5:140797478..140797539,-p1@Mad1l1
Mm9::chr6:115803317..115803361,-p2@Mbd4
Mm9::chr9:13631425..13631444,-p3@Cep57
Mm9::chrX:39504179..39504196,+p7@Stag2
Mm9::chrX:39504205..39504245,+p2@Stag2


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:0005634nucleus0.0141685794832761
GO:0016926protein desumoylation0.0314688884597356
GO:0017134fibroblast growth factor binding0.0314688884597356
GO:0007067mitosis0.0314688884597356
GO:0000087M phase of mitotic cell cycle0.0314688884597356
GO:0043231intracellular membrane-bound organelle0.0314688884597356
GO:0043227membrane-bound organelle0.0314688884597356
GO:0000278mitotic cell cycle0.0336934334272182
GO:0000279M phase0.0336934334272182
GO:0051301cell division0.0336934334272182
GO:0022403cell cycle phase0.0356650580745101
GO:0043229intracellular organelle0.0356650580745101
GO:0043226organelle0.0356650580745101
GO:0008543fibroblast growth factor receptor signaling pathway0.0411069134803286
GO:0006305DNA alkylation0.0411069134803286
GO:0006306DNA methylation0.0411069134803286
GO:0000060protein import into nucleus, translocation0.0411069134803286
GO:0008630DNA damage response, signal transduction resulting in induction of apoptosis0.0416724359350369
GO:0006284base-excision repair0.0416724359350369
GO:0006304DNA modification0.041911827250545
GO:0019212phosphatase inhibitor activity0.0421278127593552



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
hemopoietic organ2.01e-0929
immune organ2.01e-0929
primordium6.72e-09134
anterior region of body9.78e-0843
hematopoietic system1.44e-0745
blood island1.44e-0745
hemolymphoid system5.10e-0748
immune system5.10e-0748


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)
MA0003.11.08574
MA0004.10.481116
MA0006.10.837454
MA0007.10.465969
MA0009.10.92425
MA0014.10.694761
MA0017.10.337808
MA0019.10.740036
MA0024.13.37321
MA0025.11.15921
MA0027.12.57545
MA0028.10.860672
MA0029.10.858105
MA0030.10.864739
MA0031.10.828781
MA0038.10.62758
MA0040.10.936879
MA0041.11.04397
MA0042.11.01509
MA0043.11.02178
MA0046.10.960497
MA0048.10.801219
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.10.362005
MA0056.10
MA0057.11.80315
MA0058.10.384683
MA0059.10.397033
MA0060.11.90283
MA0061.10.261749
MA0063.10
MA0066.10.616444
MA0067.11.27078
MA0068.11.25994
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.10.845602
MA0074.10.580087
MA0076.10.938908
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
MA0093.10.329976
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
MA0114.10.719313
MA0115.11.0246
MA0116.12.30533
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
MA0144.10.72625
MA0145.10.0910975
MA0146.10.493711
MA0147.10.274511
MA0148.10.49752
MA0149.10.411562
MA0062.20.967192
MA0035.20.573016
MA0039.20.557969
MA0138.20.727395
MA0002.20.592533
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.20.631649
MA0065.21.0577
MA0150.11.17631
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
MA0162.10.302441
MA0163.11.20194
MA0164.10.600609
MA0080.20.343316
MA0018.20.610433
MA0099.20.721008
MA0079.21.47363
MA0102.21.65195
MA0258.10.246285
MA0259.10.26402
MA0442.10
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