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MCL coexpression mm9:626: Difference between revisions

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{{MCL_coexpression_mm9
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antiporter activity;0.0273897557378882;20541!GO:0015368;calcium:cation antiporter activity;0.0273897557378882;20541!GO:0030315;T-tubule;0.028479102603904;20541!GO:0015491;cation:cation antiporter activity;0.028479102603904;20541!GO:0002026;regulation of the force of heart contraction;0.028479102603904;20541!GO:0015298;solute:cation antiporter activity;0.0328532991235434;20541!GO:0015300;solute:solute antiporter activity;0.0328532991235434;20541!GO:0042383;sarcolemma;0.0383214950156528;20541!GO:0008016;regulation of heart contraction;0.0401287186248422;20541!GO:0015297;antiporter activity;0.0401287186248422;20541!GO:0060047;heart contraction;0.0401287186248422;20541!GO:0003015;heart 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|gostat_on_MCL_coexpression=GO:0005432;calcium:sodium antiporter activity;0.0273897557378882;20541!GO:0015368;calcium:cation antiporter activity;0.0273897557378882;20541!GO:0030315;T-tubule;0.028479102603904;20541!GO:0015491;cation:cation antiporter activity;0.028479102603904;20541!GO:0002026;regulation of the force of heart contraction;0.028479102603904;20541!GO:0015298;solute:cation antiporter activity;0.0328532991235434;20541!GO:0015300;solute:solute antiporter activity;0.0328532991235434;20541!GO:0042383;sarcolemma;0.0383214950156528;20541!GO:0008016;regulation of heart contraction;0.0401287186248422;20541!GO:0015297;antiporter activity;0.0401287186248422;20541!GO:0060047;heart contraction;0.0401287186248422;20541!GO:0003015;heart process;0.0401287186248422;20541!
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|ontology_enrichment_uberon=UBERON:0010314!1.29e-16!92;UBERON:0000025!1.66e-15!114;UBERON:0002020!2.40e-13!34;UBERON:0004111!4.67e-13!122;UBERON:0003103!5.13e-13!43;UBERON:0000073!1.46e-12!54;UBERON:0001049!2.32e-12!52;UBERON:0005068!2.32e-12!52;UBERON:0006241!2.32e-12!52;UBERON:0007135!2.32e-12!52;UBERON:0002346!4.68e-11!64;UBERON:0003075!4.68e-11!64;UBERON:0007284!4.68e-11!64;UBERON:0007100!7.37e-11!18;UBERON:0000948!7.37e-11!18;UBERON:0005498!7.37e-11!18;UBERON:0004140!7.37e-11!18;UBERON:0009881!7.37e-11!18;UBERON:0004141!7.37e-11!18;UBERON:0003084!7.37e-11!18;UBERON:0007005!7.37e-11!18;UBERON:0004139!7.37e-11!18;UBERON:0004291!7.37e-11!18;UBERON:0003528!1.91e-10!29;UBERON:0002791!1.91e-10!29;UBERON:0001893!1.91e-10!29;UBERON:0000955!8.75e-10!47;UBERON:0006238!8.75e-10!47;UBERON:0002021!1.32e-09!10;UBERON:0000411!1.32e-09!10;UBERON:0001950!1.32e-09!10;UBERON:0002616!3.52e-09!46;UBERON:0010371!4.11e-08!73;UBERON:0003056!4.55e-08!49;UBERON:0003080!4.57e-08!40;UBERON:0000956!1.16e-07!21;UBERON:0001869!1.16e-07!21;UBERON:0000203!1.16e-07!21;UBERON:0001017!1.29e-07!73;UBERON:0002780!1.49e-07!39;UBERON:0001890!1.49e-07!39;UBERON:0006240!1.49e-07!39;UBERON:0002619!2.56e-07!17;UBERON:0004535!3.13e-07!23;UBERON:0001009!3.13e-07!23;UBERON:0001016!4.22e-07!75
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.0385715,0.245304,0.818969,0.1565,0.315748,0.396495,1.05341,0.320069,0.169674,0.357058,1.00221,0.0909495,0.407615,0.974258,0,0.587245,0.897987,0.279039,0.33293,0.215242,0.0948826,0.406794,0.155356,0.251585,0.432737,0.0768517,0.334131,0.191143,0.198166,0.321757,0.683831,0.14899,0.234079,0.169391,0.246271,0.142225,0.382372,0.126724,0.107198,0.910079,0.870859,0.2117,0.508662,0.0216041,0.293566,0.512146,0.34807,0.0642028,0.19345,0.570705,0.457464,0.0502729,0.82076,0.837732,0.414119,0.200484,0.37415,0.250759,0.412262,0.664611,0.46618,0.104381,0.560059,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.229771,0.647992,0.0239269,2.02139,0.0680008,0.0619297,0.233965,1.2527,0.648171,1.171,0.316038,0.60374,0.464847,0.0868537,0.758319,0.00596121,8.59892,0.053731,0.516731,1.47691,1.03946,0.763136,0.696137,0.940863,0.12392,0.11194,0.622881,0.698838,0.512384,0.0434558,0.142282,0.683562,0.803823,0.571268,0.57027,0.3259,0.627019,0.344504,0.222586,0.216685,0.261228,0.805555,1.17452,0.361667,1.04639,0.463309,0.00984144,0.306448,0.58848,0.139554,0.875675,2.29366,0.434408,1.25089,1.09972,0.651709,0.403884,0.689622,0.969481,0.49047,0.787341,0.296885,0.940498,0.426575,1.06766,0.0212043,0.753345,0.327523,1.01927,1.84381,1.44523,0.975592,1.13238,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.157809,0.445509,0.0183397,0.822286,0.115938,0.425729,0.901933,0.458393,0.52735,0.73227,0.274055,1.02862,0.757491,0.652135,0.25933,1.37904,0.418964,0.141416,0.384198,0.0476708
|tfbs_overrepresentation_jaspar=MA0003.1;0.000213286,MA0004.1;0.303605,MA0006.1;0.16569,MA0007.1;0.790701,MA0009.1;0.709264,MA0014.1;0.00213944,MA0017.1;1.64767,MA0019.1;0.535691,MA0024.1;0.667197,MA0025.1;0.936082,MA0027.1;2.34178,MA0028.1;0.173587,MA0029.1;2.637,MA0030.1;0.65267,MA0031.1;0.618697,MA0038.1;0.432665,MA0040.1;0.721328,MA0041.1;0.239557,MA0042.1;1.20982,MA0043.1;0.802848,MA0046.1;0.743934,MA0048.1;0.0440103,MA0050.1;1.60735,MA0051.1;1.12244,MA0052.1;0.729105,MA0055.1;0.00695701,MA0056.1;0,MA0057.1;0.0386961,MA0058.1;0.635024,MA0059.1;0.233271,MA0060.1;0.108526,MA0061.1;0.40468,MA0063.1;0,MA0066.1;0.422624,MA0067.1;1.04514,MA0068.1;0.361347,MA0069.1;0.729433,MA0070.1;0.720077,MA0071.1;0.894189,MA0072.1;0.711905,MA0073.1;14.397,MA0074.1;1.01196,MA0076.1;0.200996,MA0077.1;0.691048,MA0078.1;0.471303,MA0081.1;0.252371,MA0083.1;0.802078,MA0084.1;1.3693,MA0087.1;0.760279,MA0088.1;0.0227266,MA0089.1;0,MA0090.1;0.27428,MA0091.1;0.315003,MA0092.1;0.753925,MA0093.1;0.531567,MA0095.1;0,MA0098.1;0,MA0100.1;0.379666,MA0101.1;0.240622,MA0103.1;0.19444,MA0105.1;0.0633795,MA0106.1;0.478503,MA0107.1;0.555009,MA0108.2;0.557195,MA0109.1;0,MA0111.1;0.286331,MA0113.1;0.452439,MA0114.1;1.29784,MA0115.1;0.805567,MA0116.1;0.165534,MA0117.1;0.774259,MA0119.1;0.241106,MA0122.1;0.793507,MA0124.1;0.992825,MA0125.1;0.920215,MA0130.1;0,MA0131.1;0.531427,MA0132.1;0,MA0133.1;0,MA0135.1;0.838263,MA0136.1;0.408073,MA0139.1;0.61859,MA0140.1;0.988903,MA0141.1;1.13771,MA0142.1;3.6564,MA0143.1;3.0447,MA0144.1;0.129525,MA0145.1;0.0257706,MA0146.1;0.00325174,MA0147.1;0.138228,MA0148.1;0.317692,MA0149.1;0.245177,MA0062.2;0.235333,MA0035.2;0.383789,MA0039.2;0.00920605,MA0138.2;0.523978,MA0002.2;0.0901987,MA0137.2;0.598347,MA0104.2;0.099275,MA0047.2;0.431964,MA0112.2;0.494696,MA0065.2;0.0259098,MA0150.1;0.290598,MA0151.1;0,MA0152.1;0.432062,MA0153.1;0.854464,MA0154.1;0.042968,MA0155.1;0.0312913,MA0156.1;0.580656,MA0157.1;0.574484,MA0158.1;0,MA0159.1;0.446593,MA0160.1;1.5465,MA0161.1;0,MA0162.1;0.0257461,MA0163.1;0.00375714,MA0164.1;3.78388,MA0080.2;0.190316,MA0018.2;0.417217,MA0099.2;1.28797,MA0079.2;0.159896,MA0102.2;1.42135,MA0258.1;0.756558,MA0259.1;0.130633,MA0442.1;0
}}

Latest revision as of 15:37, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr17:81774774..81774786,-p@chr17:81774774..81774786
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Mm9::chr17:81774792..81774804,-p@chr17:81774792..81774804
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Mm9::chr17:81774861..81774874,-p@chr17:81774861..81774874
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Mm9::chr17:81775224..81775241,-p@chr17:81775224..81775241
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Mm9::chr17:81775324..81775339,-p@chr17:81775324..81775339
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Mm9::chr17:81775424..81775434,-p@chr17:81775424..81775434
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Mm9::chr17:81778386..81778400,-p@chr17:81778386..81778400
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Mm9::chr17:81778448..81778462,-p@chr17:81778448..81778462
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Mm9::chr17:81779985..81780016,-p@chr17:81779985..81780016
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Mm9::chr17:81787666..81787681,-p@chr17:81787666..81787681
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Mm9::chr17:82047194..82047205,-p@chr17:82047194..82047205
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Mm9::chr5:51849314..51849339,-p@chr5:51849314..51849339
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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:0005432calcium:sodium antiporter activity0.0273897557378882
GO:0015368calcium:cation antiporter activity0.0273897557378882
GO:0030315T-tubule0.028479102603904
GO:0015491cation:cation antiporter activity0.028479102603904
GO:0002026regulation of the force of heart contraction0.028479102603904
GO:0015298solute:cation antiporter activity0.0328532991235434
GO:0015300solute:solute antiporter activity0.0328532991235434
GO:0042383sarcolemma0.0383214950156528
GO:0008016regulation of heart contraction0.0401287186248422
GO:0015297antiporter activity0.0401287186248422
GO:0060047heart contraction0.0401287186248422
GO:0003015heart process0.0401287186248422



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
structure with developmental contribution from neural crest1.29e-1692
tube1.66e-15114
gray matter2.40e-1334
anatomical conduit4.67e-13122
compound organ5.13e-1343
regional part of nervous system1.46e-1254
neural tube2.32e-1252
neural rod2.32e-1252
future spinal cord2.32e-1252
neural keel2.32e-1252
neurectoderm4.68e-1164
neural plate4.68e-1164
presumptive neural plate4.68e-1164
primary circulatory organ7.37e-1118
heart7.37e-1118
primitive heart tube7.37e-1118
primary heart field7.37e-1118
anterior lateral plate mesoderm7.37e-1118
heart tube7.37e-1118
heart primordium7.37e-1118
cardiac mesoderm7.37e-1118
cardiogenic plate7.37e-1118
heart rudiment7.37e-1118
brain grey matter1.91e-1029
regional part of telencephalon1.91e-1029
telencephalon1.91e-1029
brain8.75e-1047
future brain8.75e-1047
occipital lobe1.32e-0910
visual cortex1.32e-0910
neocortex1.32e-0910
regional part of brain3.52e-0946
ecto-epithelium4.11e-0873
pre-chordal neural plate4.55e-0849
anterior neural tube4.57e-0840
cerebral cortex1.16e-0721
cerebral hemisphere1.16e-0721
pallium1.16e-0721
central nervous system1.29e-0773
regional part of forebrain1.49e-0739
forebrain1.49e-0739
future forebrain1.49e-0739
regional part of cerebral cortex2.56e-0717
cardiovascular system3.13e-0723
circulatory system3.13e-0723
nervous system4.22e-0775


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)
MA0003.10.000213286
MA0004.10.303605
MA0006.10.16569
MA0007.10.790701
MA0009.10.709264
MA0014.10.00213944
MA0017.11.64767
MA0019.10.535691
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.10.173587
MA0029.12.637
MA0030.10.65267
MA0031.10.618697
MA0038.10.432665
MA0040.10.721328
MA0041.10.239557
MA0042.11.20982
MA0043.10.802848
MA0046.10.743934
MA0048.10.0440103
MA0050.11.60735
MA0051.11.12244
MA0052.10.729105
MA0055.10.00695701
MA0056.10
MA0057.10.0386961
MA0058.10.635024
MA0059.10.233271
MA0060.10.108526
MA0061.10.40468
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.10.361347
MA0069.10.729433
MA0070.10.720077
MA0071.10.894189
MA0072.10.711905
MA0073.114.397
MA0074.11.01196
MA0076.10.200996
MA0077.10.691048
MA0078.10.471303
MA0081.10.252371
MA0083.10.802078
MA0084.11.3693
MA0087.10.760279
MA0088.10.0227266
MA0089.10
MA0090.10.27428
MA0091.10.315003
MA0092.10.753925
MA0093.10.531567
MA0095.10
MA0098.10
MA0100.10.379666
MA0101.10.240622
MA0103.10.19444
MA0105.10.0633795
MA0106.10.478503
MA0107.10.555009
MA0108.20.557195
MA0109.10
MA0111.10.286331
MA0113.10.452439
MA0114.11.29784
MA0115.10.805567
MA0116.10.165534
MA0117.10.774259
MA0119.10.241106
MA0122.10.793507
MA0124.10.992825
MA0125.10.920215
MA0130.10
MA0131.10.531427
MA0132.10
MA0133.10
MA0135.10.838263
MA0136.10.408073
MA0139.10.61859
MA0140.10.988903
MA0141.11.13771
MA0142.13.6564
MA0143.13.0447
MA0144.10.129525
MA0145.10.0257706
MA0146.10.00325174
MA0147.10.138228
MA0148.10.317692
MA0149.10.245177
MA0062.20.235333
MA0035.20.383789
MA0039.20.00920605
MA0138.20.523978
MA0002.20.0901987
MA0137.20.598347
MA0104.20.099275
MA0047.20.431964
MA0112.20.494696
MA0065.20.0259098
MA0150.10.290598
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.042968
MA0155.10.0312913
MA0156.10.580656
MA0157.10.574484
MA0158.10
MA0159.10.446593
MA0160.11.5465
MA0161.10
MA0162.10.0257461
MA0163.10.00375714
MA0164.13.78388
MA0080.20.190316
MA0018.20.417217
MA0099.21.28797
MA0079.20.159896
MA0102.21.42135
MA0258.10.756558
MA0259.10.130633
MA0442.10
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