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MCL coexpression mm9:382: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0002193!7.18e-18!48;UBERON:0002405!7.18e-18!48;UBERON:0002390!1.52e-17!45;UBERON:0003061!1.52e-17!45;UBERON:0004177!3.89e-16!29;UBERON:0005057!3.89e-16!29;UBERON:0000077!1.04e-12!35;UBERON:0002370!6.28e-12!23;UBERON:0000974!6.28e-12!23;UBERON:0004807!6.28e-12!23;UBERON:0005058!6.28e-12!23;UBERON:0003351!6.28e-12!23;UBERON:0009113!6.28e-12!23;UBERON:0003295!6.28e-12!23;UBERON:0009722!6.28e-12!23;UBERON:0005562!6.28e-12!23;UBERON:0007690!6.28e-12!23;UBERON:0006562!3.75e-11!24;UBERON:0003408!3.75e-11!24;UBERON:0001557!3.75e-11!24;UBERON:0001042!3.75e-11!24;UBERON:0008814!3.75e-11!24;UBERON:0009145!3.75e-11!24;UBERON:0001041!2.10e-10!80;UBERON:0000072!3.42e-09!27;UBERON:0000065!4.80e-08!41;UBERON:0003929!8.45e-08!55;UBERON:0005911!9.79e-08!69;UBERON:0001004!1.13e-07!42;UBERON:0003081!1.43e-07!87;UBERON:0002368!1.44e-07!60
|tfbs_overrepresentation_for_novel_motifs=0.138811,0.426221,0.122882,0.165951,0.493134,0.175657,0.240519,1.19828,0.298763,0.161937,0.208344,0.231566,0.116335,0.249744,0.249925,0,0.405853,0.217419,0.249696,0.601422,0.33349,0.615144,0.249061,0.225711,0.127411,0.270807,1.05975,0.190063,0.0855806,0.316933,0.532548,0.493846,2.27485,0.0770111,0.0716204,0.333459,0.44687,0.228897,0.175967,0.142999,0.222477,0.541149,0.362352,0.25264,0.265696,0.158598,0.339166,0.201138,0.0320039,0.0870988,1.01403,0.291819,0.297906,1.50682,2.60953,1.30935,0.30656,0.222181,0.216792,0.705824,0.476165,0.299289,0.0344936,0.381514,0.26368,0.41591,0.765078,1.10104,0.472057,0.958179,0.360193,0.122106,0.917807,0.66884,0.396062,0.18496,0.634832,0.329879,0.461106,0.339733,0.293881,0.420719,0.298144,0.497032,0.563042,0.241331,4.54776,0.012217,0.908536,1.25993,0.831175,0.56755,0.505205,0.235518,0.171179,0.348321,0.815011,0.507703,1.61405,0.0446351,0.447055,0.493598,0.605777,0.391523,0.390631,0.540415,0.44182,0.198293,0.106835,0.102757,0.134437,0.607409,0.34141,0.212058,0.837889,0.220154,0.217615,0.168461,1.04886,0.4382,0.673855,0.363969,0.748598,0.329142,0.889642,1.17306,0.689677,0.499188,0.763646,0.514635,0.590261,0.941762,0.735806,0.265613,0.858504,0.127797,0.144091,0.184858,0.811653,1.62404,1.22863,0.769526,0.281588,0.50313,0.385159,0.541905,0.341725,1.58469,0.446755,1.29291,0.546569,0.35835,0.623204,0.361359,0.264901,0.698893,1.44696,0.266327,0.425787,0.143914,0.820693,0.562267,0.464731,0.133047,0.382373,0.718757,0.775121,0.230394,2.38193
|tfbs_overrepresentation_jaspar=MA0003.1;0.677036,MA0004.1;0.166273,MA0006.1;0.243994,MA0007.1;0.473814,MA0009.1;3.2696,MA0014.1;0.279276,MA0017.1;0.0822314,MA0019.1;0.359884,MA0024.1;0.47854,MA0025.1;0.731571,MA0027.1;2.12059,MA0028.1;0.548349,MA0029.1;1.16259,MA0030.1;0.465221,MA0031.1;0.434261,MA0038.1;0.270746,MA0040.1;0.528552,MA0041.1;0.118772,MA0042.1;0.11115,MA0043.1;0.604858,MA0046.1;0.549602,MA0048.1;3.66707,MA0050.1;0.19271,MA0051.1;0.277682,MA0052.1;2.27883,MA0055.1;8.87191,MA0056.1;0,MA0057.1;0.0382333,MA0058.1;0.107291,MA0059.1;0.114315,MA0060.1;0.0366148,MA0061.1;0.179869,MA0063.1;0,MA0066.1;0.262291,MA0067.1;0.836675,MA0068.1;0.115531,MA0069.1;0.536088,MA0070.1;0.52739,MA0071.1;0.192126,MA0072.1;0.519805,MA0073.1;0.253464,MA0074.1;0.235223,MA0076.1;0.636542,MA0077.1;0.500504,MA0078.1;0.303693,MA0081.1;1.30173,MA0083.1;0.604132,MA0084.1;1.15371,MA0087.1;0.564877,MA0088.1;0.63442,MA0089.1;0,MA0090.1;0.144081,MA0091.1;1.58527,MA0092.1;0.443474,MA0093.1;0.0783063,MA0095.1;0,MA0098.1;0,MA0100.1;0.643107,MA0101.1;0.119531,MA0103.1;1.03166,MA0105.1;0.189687,MA0106.1;0.309901,MA0107.1;0.286884,MA0108.2;0.378962,MA0109.1;0,MA0111.1;0.465601,MA0113.1;0.287528,MA0114.1;0.177066,MA0115.1;0.60742,MA0116.1;0.52235,MA0117.1;0.577975,MA0119.1;0.119877,MA0122.1;0.596061,MA0124.1;0.786128,MA0125.1;0.716372,MA0130.1;0,MA0131.1;0.356119,MA0132.1;0,MA0133.1;0,MA0135.1;0.638323,MA0136.1;0.697748,MA0139.1;1.17479,MA0140.1;1.20152,MA0141.1;0.323987,MA0142.1;0.421761,MA0143.1;0.300449,MA0144.1;0.180765,MA0145.1;0.0688972,MA0146.1;1.69457,MA0147.1;0.0528647,MA0148.1;1.0074,MA0149.1;0.12279,MA0062.2;0.638596,MA0035.2;3.49315,MA0039.2;0.000364379,MA0138.2;0.349554,MA0002.2;3.19257,MA0137.2;0.0966473,MA0104.2;0.129899,MA0047.2;0.270154,MA0112.2;0.0688922,MA0065.2;0.156268,MA0150.1;0.156344,MA0151.1;0,MA0152.1;0.270237,MA0153.1;0.653688,MA0154.1;0.68796,MA0155.1;1.42362,MA0156.1;1.56699,MA0157.1;0.394402,MA0158.1;0,MA0159.1;0.0571096,MA0160.1;0.179214,MA0161.1;0,MA0162.1;0.0572271,MA0163.1;0.169249,MA0164.1;1.29154,MA0080.2;1.50365,MA0018.2;0.715385,MA0099.2;0.344363,MA0079.2;0.000703502,MA0102.2;1.20505,MA0258.1;0.161183,MA0259.1;0.048545,MA0442.1;0
}}

Latest revision as of 15:12, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:3191741..3191769,+p5@Patz1
Mm9::chr11:51457843..51457854,-p@chr11:51457843..51457854
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Mm9::chr13:45078358..45078373,-p2@Dtnbp1
Mm9::chr16:49855858..49855869,+p3@Cd47
Mm9::chr16:49856229..49856241,-p@chr16:49856229..49856241
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Mm9::chr17:84174896..84174943,+p@chr17:84174896..84174943
+
Mm9::chr1:162237435..162237453,-p@chr1:162237435..162237453
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Mm9::chr1:162237455..162237480,-p@chr1:162237455..162237480
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Mm9::chr1:162237482..162237522,-p@chr1:162237482..162237522
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Mm9::chr1:162237531..162237550,-p@chr1:162237531..162237550
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Mm9::chr1:162237551..162237568,-p@chr1:162237551..162237568
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Mm9::chr1:162237570..162237583,-p@chr1:162237570..162237583
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Mm9::chr2:180174574..180174609,-p@chr2:180174574..180174609
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Mm9::chr3:68496126..68496135,-p@chr3:68496126..68496135
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Mm9::chr5:148230164..148230205,+p1@D5Ertd605e
Mm9::chr5:148241798..148241820,+p3@Pan3
Mm9::chr5:148241866..148241878,+p4@Pan3
Mm9::chr7:134851564..134851598,-p4@Bcl7c
Mm9::chr7:142843670..142843678,-p3@5830432E09Rik
Mm9::chr7:53175526..53175563,-p@chr7:53175526..53175563
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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

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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
hemolymphoid system7.18e-1848
immune system7.18e-1848
hematopoietic system1.52e-1745
blood island1.52e-1745
hemopoietic organ3.89e-1629
immune organ3.89e-1629
mixed endoderm/mesoderm-derived structure1.04e-1235
thymus6.28e-1223
neck6.28e-1223
respiratory system epithelium6.28e-1223
hemolymphoid system gland6.28e-1223
pharyngeal epithelium6.28e-1223
thymic region6.28e-1223
pharyngeal gland6.28e-1223
entire pharyngeal arch endoderm6.28e-1223
thymus primordium6.28e-1223
early pharyngeal endoderm6.28e-1223
pharynx3.75e-1124
gland of gut3.75e-1124
upper respiratory tract3.75e-1124
chordate pharynx3.75e-1124
pharyngeal arch system3.75e-1124
pharyngeal region of foregut3.75e-1124
foregut2.10e-1080
segment of respiratory tract3.42e-0927
respiratory tract4.80e-0841
gut epithelium8.45e-0855
endo-epithelium9.79e-0869
respiratory system1.13e-0742
lateral plate mesoderm1.43e-0787
endocrine gland1.44e-0760


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)
MA0003.10.677036
MA0004.10.166273
MA0006.10.243994
MA0007.10.473814
MA0009.13.2696
MA0014.10.279276
MA0017.10.0822314
MA0019.10.359884
MA0024.10.47854
MA0025.10.731571
MA0027.12.12059
MA0028.10.548349
MA0029.11.16259
MA0030.10.465221
MA0031.10.434261
MA0038.10.270746
MA0040.10.528552
MA0041.10.118772
MA0042.10.11115
MA0043.10.604858
MA0046.10.549602
MA0048.13.66707
MA0050.10.19271
MA0051.10.277682
MA0052.12.27883
MA0055.18.87191
MA0056.10
MA0057.10.0382333
MA0058.10.107291
MA0059.10.114315
MA0060.10.0366148
MA0061.10.179869
MA0063.10
MA0066.10.262291
MA0067.10.836675
MA0068.10.115531
MA0069.10.536088
MA0070.10.52739
MA0071.10.192126
MA0072.10.519805
MA0073.10.253464
MA0074.10.235223
MA0076.10.636542
MA0077.10.500504
MA0078.10.303693
MA0081.11.30173
MA0083.10.604132
MA0084.11.15371
MA0087.10.564877
MA0088.10.63442
MA0089.10
MA0090.10.144081
MA0091.11.58527
MA0092.10.443474
MA0093.10.0783063
MA0095.10
MA0098.10
MA0100.10.643107
MA0101.10.119531
MA0103.11.03166
MA0105.10.189687
MA0106.10.309901
MA0107.10.286884
MA0108.20.378962
MA0109.10
MA0111.10.465601
MA0113.10.287528
MA0114.10.177066
MA0115.10.60742
MA0116.10.52235
MA0117.10.577975
MA0119.10.119877
MA0122.10.596061
MA0124.10.786128
MA0125.10.716372
MA0130.10
MA0131.10.356119
MA0132.10
MA0133.10
MA0135.10.638323
MA0136.10.697748
MA0139.11.17479
MA0140.11.20152
MA0141.10.323987
MA0142.10.421761
MA0143.10.300449
MA0144.10.180765
MA0145.10.0688972
MA0146.11.69457
MA0147.10.0528647
MA0148.11.0074
MA0149.10.12279
MA0062.20.638596
MA0035.23.49315
MA0039.20.000364379
MA0138.20.349554
MA0002.23.19257
MA0137.20.0966473
MA0104.20.129899
MA0047.20.270154
MA0112.20.0688922
MA0065.20.156268
MA0150.10.156344
MA0151.10
MA0152.10.270237
MA0153.10.653688
MA0154.10.68796
MA0155.11.42362
MA0156.11.56699
MA0157.10.394402
MA0158.10
MA0159.10.0571096
MA0160.10.179214
MA0161.10
MA0162.10.0572271
MA0163.10.169249
MA0164.11.29154
MA0080.21.50365
MA0018.20.715385
MA0099.20.344363
MA0079.20.000703502
MA0102.21.20505
MA0258.10.161183
MA0259.10.048545
MA0442.10
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