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|ontology_enrichment_uberon=UBERON:0001134!2.37e-10!9;UBERON:0002036!2.37e-10!9;UBERON:0002385!2.37e-10!9;UBERON:0000486!2.37e-10!9;UBERON:0007503!2.37e-10!9;UBERON:0001015!2.37e-10!9;UBERON:0002329!2.37e-10!9;UBERON:0003082!2.37e-10!9;UBERON:0003059!2.37e-10!9;UBERON:0007282!2.37e-10!9;UBERON:0004290!2.37e-10!9;UBERON:0009618!2.37e-10!9;UBERON:0000383!3.11e-09!10;UBERON:0001135!4.24e-09!3;UBERON:0004237!4.24e-09!3;UBERON:0004695!4.24e-09!3;UBERON:0002111!4.24e-09!3;UBERON:0004178!4.24e-09!3;UBERON:0003103!5.45e-09!43;UBERON:0004535!5.65e-09!23;UBERON:0001009!5.65e-09!23;UBERON:0007524!2.56e-08!11;UBERON:0003077!2.56e-08!11;UBERON:0007285!2.56e-08!11;UBERON:0004872!2.86e-08!33;UBERON:0000947!6.87e-07!4;UBERON:0001637!6.87e-07!4;UBERON:0004573!6.87e-07!4;UBERON:0003509!6.87e-07!4;UBERON:0004571!6.87e-07!4;UBERON:0010191!6.87e-07!4;UBERON:0004572!6.87e-07!4
|ontology_enrichment_uberon=UBERON:0001134!2.37e-10!9;UBERON:0002036!2.37e-10!9;UBERON:0002385!2.37e-10!9;UBERON:0000486!2.37e-10!9;UBERON:0007503!2.37e-10!9;UBERON:0001015!2.37e-10!9;UBERON:0002329!2.37e-10!9;UBERON:0003082!2.37e-10!9;UBERON:0003059!2.37e-10!9;UBERON:0007282!2.37e-10!9;UBERON:0004290!2.37e-10!9;UBERON:0009618!2.37e-10!9;UBERON:0000383!3.11e-09!10;UBERON:0001135!4.24e-09!3;UBERON:0004237!4.24e-09!3;UBERON:0004695!4.24e-09!3;UBERON:0002111!4.24e-09!3;UBERON:0004178!4.24e-09!3;UBERON:0003103!5.45e-09!43;UBERON:0004535!5.65e-09!23;UBERON:0001009!5.65e-09!23;UBERON:0007524!2.56e-08!11;UBERON:0003077!2.56e-08!11;UBERON:0007285!2.56e-08!11;UBERON:0004872!2.86e-08!33;UBERON:0000947!6.87e-07!4;UBERON:0001637!6.87e-07!4;UBERON:0004573!6.87e-07!4;UBERON:0003509!6.87e-07!4;UBERON:0004571!6.87e-07!4;UBERON:0010191!6.87e-07!4;UBERON:0004572!6.87e-07!4
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.369498,0.411716,0.480627,0.299217,1.23933,0.587291,0.206208,0.215218,0.219671,0.542749,1.40872,1.76146,0.599731,0.847296,0,0.795315,0.291368,1.68259,0.361892,0.374752,0.27937,0.598814,0.29769,0.419327,0.62766,0.542568,0.516511,0.344372,0.446946,0.50223,0.897561,0.289148,0.964228,0.848378,0.248902,1.40094,0.57142,0.258564,0.652422,0.295233,0.507468,0.258106,0.317766,0.277561,2.05905,0.714592,0.532496,0.219744,0.347313,1.83068,0.654933,0.851157,1.04034,1.0579,0.606984,0.356236,0.56214,0.176152,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.608073,0.0869413,1.09164,0.507615,0.159969,0.498755,0.703064,0.859987,0.378988,1.79723,0.812889,0.663039,0.200155,0.975495,0.613286,0.164297,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.254625,0.237542,1.11365,0.913319,1.70082,1.29592,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.982279,1.10097,1.02459,0.380122,0.547992,1.27206,0.796976,0.418498,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,0.702145,1.32639,2.00769,0.595563,0.903645,1.19345,1.5026,1.00568,0.473246,1.16374,0.620831,1.29374,0.580299,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.886471,0.256263,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,1.13413,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,1.42871
|tfbs_overrepresentation_for_novel_motifs=0.438063,0.369498,0.411716,0.480627,0.299217,1.23933,0.587291,0.206208,0.215218,0.219671,0.542749,1.40872,1.76146,0.599731,0.847296,0,0.795315,0.291368,1.68259,0.361892,0.374752,0.27937,0.598814,0.29769,0.419327,0.62766,0.542568,0.516511,0.344372,0.446946,0.50223,0.897561,0.289148,0.964228,0.848378,0.248902,1.40094,0.57142,0.258564,0.652422,0.295233,0.507468,0.258106,0.317766,0.277561,2.05905,0.714592,0.532496,0.219744,0.347313,1.83068,0.654933,0.851157,1.04034,1.0579,0.606984,0.356236,0.56214,0.176152,0.604914,0.877332,0.664501,0.642748,0.766235,0.618279,0.807219,1.19497,1.54543,0.872612,1.39786,0.392734,0.608073,0.0869413,1.09164,0.507615,0.159969,0.498755,0.703064,0.859987,0.378988,1.79723,0.812889,0.663039,0.200155,0.975495,0.613286,0.164297,0.447265,0.719558,1.70793,1.26498,0.980512,0.910485,0.305079,0.254625,0.237542,1.11365,0.913319,1.70082,1.29592,0.280055,0.897279,1.02279,0.778243,0.777175,0.507021,0.837607,0.528416,0.383871,0.982279,1.10097,1.02459,0.380122,0.547992,1.27206,0.796976,0.418498,0.484437,0.796633,0.276329,1.09707,0.745011,0.629509,0.702145,1.32639,2.00769,0.595563,0.903645,1.19345,1.5026,1.00568,0.473246,1.16374,0.620831,1.29374,0.580299,0.446555,0.508896,1.24438,2.07659,1.67603,1.19971,0.641722,0.908128,0.770616,0.507927,0.717753,2.03691,0.448938,0.300961,0.886471,0.256263,1.04192,0.243291,0.619892,1.12411,0.655955,0.327731,0.435579,1.13413,1.25393,0.974632,0.864173,0.428662,0.767269,0.612377,0.278874,0.573477,1.42871
|tfbs_overrepresentation_jaspar=MA0003.1;1.08574,MA0004.1;0.481116,MA0006.1;0.311391,MA0007.1;1.17655,MA0009.1;0.92425,MA0014.1;2.32876,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;6.79887,MA0048.1;0.40238,MA0050.1;0.520357,MA0051.1;0.636645,MA0052.1;0.945011,MA0055.1;1.43589,MA0056.1;0,MA0057.1;0.376102,MA0058.1;0.384683,MA0059.1;0.397033,MA0060.1;0.232592,MA0061.1;1.33382,MA0063.1;0,MA0066.1;1.49567,MA0067.1;1.27078,MA0068.1;1.83304,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;0.356883,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;0.598004,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;0.488671,MA0106.1;1.62423,MA0107.1;0.906859,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;0.836994,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;1.10833,MA0140.1;0.568252,MA0141.1;0.368264,MA0142.1;0.814115,MA0143.1;0.665982,MA0144.1;2.05933,MA0145.1;0.304732,MA0146.1;0.493711,MA0147.1;0.274511,MA0148.1;0.49752,MA0149.1;0.411562,MA0062.2;0.167299,MA0035.2;0.573016,MA0039.2;0.367001,MA0138.2;0.727395,MA0002.2;2.48015,MA0137.2;1.70505,MA0104.2;0.218974,MA0047.2;0.626803,MA0112.2;0.0910939,MA0065.2;0.633155,MA0150.1;0.465855,MA0151.1;0,MA0152.1;0.626912,MA0153.1;5.63571,MA0154.1;0.792589,MA0155.1;0.687925,MA0156.1;0.936991,MA0157.1;0.781683,MA0158.1;0,MA0159.1;1.4173,MA0160.1;0.50056,MA0161.1;0,MA0162.1;0.127623,MA0163.1;0.519779,MA0164.1;0.600609,MA0080.2;0.908823,MA0018.2;0.610433,MA0099.2;1.71359,MA0079.2;0.233827,MA0102.2;1.65195,MA0258.1;0.688848,MA0259.1;0.26402,MA0442.1;0
}}
}}

Revision as of 12:42, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:58071854..58071882,+p@chr10:58071854..58071882
+
Mm9::chr1:127573438..127573451,+p5@Gpr39
Mm9::chr1:127573708..127573719,+p9@Gpr39
Mm9::chr1:127573773..127573786,+p6@Gpr39
Mm9::chr1:137662814..137662817,+p5@Phlda3
Mm9::chr2:50152414..50152430,+p2@ENSMUST00000123699
Mm9::chr8:33119942..33119952,-p4@Nrg1


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:0005176ErbB-2 class receptor binding0.0258495539819157
GO:0046579positive regulation of Ras protein signal transduction0.0258495539819157
GO:0045213neurotransmitter receptor metabolic process0.0258495539819157
GO:0051057positive regulation of small GTPase mediated signal transduction0.0258495539819157
GO:0043624cellular protein complex disassembly0.0258495539819157
GO:0043241protein complex disassembly0.0258495539819157
GO:0032984macromolecular complex disassembly0.0258495539819157
GO:0007416synaptogenesis0.0269185018583432
GO:0048663neuron fate commitment0.0269185018583432
GO:0022411cellular component disassembly0.0269185018583432
GO:0007422peripheral nervous system development0.0269185018583432
GO:0043112receptor metabolic process0.0269185018583432
GO:0010001glial cell differentiation0.0377552695103153
GO:0042063gliogenesis0.0378231262427327
GO:0050808synapse organization and biogenesis0.037881510381851



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
skeletal muscle tissue2.37e-109
striated muscle tissue2.37e-109
muscle tissue2.37e-109
multilaminar epithelium2.37e-109
epithelial vesicle2.37e-109
musculature2.37e-109
somite2.37e-109
myotome2.37e-109
presomitic mesoderm2.37e-109
presumptive segmental plate2.37e-109
dermomyotome2.37e-109
trunk paraxial mesoderm2.37e-109
musculature of body3.11e-0910
smooth muscle tissue4.24e-093
blood vessel smooth muscle4.24e-093
arterial system smooth muscle4.24e-093
artery smooth muscle tissue4.24e-093
aorta smooth muscle tissue4.24e-093
compound organ5.45e-0943
cardiovascular system5.65e-0923
circulatory system5.65e-0923
dense mesenchyme tissue2.56e-0811
paraxial mesoderm2.56e-0811
presumptive paraxial mesoderm2.56e-0811
splanchnic layer of lateral plate mesoderm2.86e-0833
aorta6.87e-074
artery6.87e-074
systemic artery6.87e-074
arterial blood vessel6.87e-074
systemic arterial system6.87e-074
aortic system6.87e-074
arterial system6.87e-074


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
MA0006.10.311391
MA0007.11.17655
MA0009.10.92425
MA0014.12.32876
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
MA0046.16.79887
MA0048.10.40238
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.11.43589
MA0056.10
MA0057.10.376102
MA0058.10.384683
MA0059.10.397033
MA0060.10.232592
MA0061.11.33382
MA0063.10
MA0066.11.49567
MA0067.11.27078
MA0068.11.83304
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.10.845602
MA0074.10.580087
MA0076.10.356883
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.10.598004
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
MA0105.10.488671
MA0106.11.62423
MA0107.10.906859
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.10.259463
MA0115.11.0246
MA0116.10.836994
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
MA0139.11.10833
MA0140.10.568252
MA0141.10.368264
MA0142.10.814115
MA0143.10.665982
MA0144.12.05933
MA0145.10.304732
MA0146.10.493711
MA0147.10.274511
MA0148.10.49752
MA0149.10.411562
MA0062.20.167299
MA0035.20.573016
MA0039.20.367001
MA0138.20.727395
MA0002.22.48015
MA0137.21.70505
MA0104.20.218974
MA0047.20.626803
MA0112.20.0910939
MA0065.20.633155
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.15.63571
MA0154.10.792589
MA0155.10.687925
MA0156.10.936991
MA0157.10.781683
MA0158.10
MA0159.11.4173
MA0160.10.50056
MA0161.10
MA0162.10.127623
MA0163.10.519779
MA0164.10.600609
MA0080.20.908823
MA0018.20.610433
MA0099.21.71359
MA0079.20.233827
MA0102.21.65195
MA0258.10.688848
MA0259.10.26402
MA0442.10
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