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MCL coexpression mm9:746: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000468!5.89e-07!333;UBERON:0003102!9.24e-07!22
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.588611,0.297937,0.360062,0.200163,0.373426,0.458558,1.8584,0.411053,0.10445,0.417132,0.447169,0.124608,0.470194,0.214197,0,0.656089,0.19356,1.209,0.0560853,0.26524,0.336916,0.469335,0.198877,0.822446,0.496413,0.709649,1.8003,0.238759,0.0790295,0.379806,1.78376,0.191698,0.0942651,0.214608,0.6066,0.184038,0.443753,0.963289,0.868806,1.70822,0.38461,0.130272,0.215898,0.0422997,0.923221,0.578773,0.407653,0.0244624,1.25738,0.639101,0.522137,0.935589,0.894161,0.911367,0.47699,0.249055,0.435119,0.68053,0.47505,0.735292,0.531188,0.854737,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.76885,0.128829,0.03967,0.944464,0.0968968,0.623453,1.07748,0.567793,0.718494,0.268962,0.406536,0.673009,0.529804,0.380754,0.830765,0.81514,0.0697823,0.271714,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,0.163126,0.892226,0.777003,0.770215,0.57902,1.81955,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.736223,0.845852,0.878738,0.26996,0.421988,1.12221,0.195318,0.212667,0.363536,0.657356,0.534159,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,0.142597,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,0.201635,0.0806411,0.305197,0.895708,0.911723,3.14257,0.976367,0.523103,0.637798,0.319291,0.328917,1.1043,0.829923,0.722546,0.841258,0.629147,1.21106,0.18312,0.445669,0.0896551
|tfbs_overrepresentation_jaspar=MA0003.1;0.0568289,MA0004.1;0.360508,MA0006.1;0.210471,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;0.189966,MA0017.1;0.233089,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;1.17347,MA0029.1;0.716673,MA0030.1;0.723093,MA0031.1;0.688336,MA0038.1;0.496338,MA0040.1;0.79313,MA0041.1;0.291712,MA0042.1;0.76637,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.066679,MA0050.1;0.396459,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.576005,MA0056.1;0,MA0057.1;0.216209,MA0058.1;0.752621,MA0059.1;0.777514,MA0060.1;0.446031,MA0061.1;0.504772,MA0063.1;0,MA0066.1;0.485868,MA0067.1;1.12095,MA0068.1;1.76619,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;0.395679,MA0072.1;0.783532,MA0073.1;0.000387955,MA0074.1;0.451832,MA0076.1;1.28862,MA0077.1;0.762273,MA0078.1;0.536502,MA0081.1;0.305576,MA0083.1;0.875209,MA0084.1;1.44691,MA0087.1;0.832758,MA0088.1;0.0379749,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;0.329444,MA0093.1;0.642324,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;0.292867,MA0103.1;0.67982,MA0105.1;0.304995,MA0106.1;0.543967,MA0107.1;0.237082,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.342068,MA0113.1;0.516916,MA0114.1;0.500166,MA0115.1;0.878749,MA0116.1;1.13868,MA0117.1;0.846964,MA0119.1;0.293392,MA0122.1;0.866511,MA0124.1;1.06819,MA0125.1;0.994853,MA0130.1;0,MA0131.1;0.598671,MA0132.1;0,MA0133.1;0,MA0135.1;0.911905,MA0136.1;0.470672,MA0139.1;0.385513,MA0140.1;0.440804,MA0141.1;0.259554,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;1.55335,MA0145.1;0.042251,MA0146.1;0.111454,MA0147.1;0.530496,MA0148.1;0.375491,MA0149.1;0.2978,MA0062.2;0.314778,MA0035.2;0.44524,MA0039.2;0.026226,MA0138.2;0.590987,MA0002.2;0.781868,MA0137.2;0.713675,MA0104.2;0.418613,MA0047.2;0.495607,MA0112.2;0.163154,MA0065.2;0.373167,MA0150.1;0.916186,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;1.3022,MA0155.1;0.732931,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.550545,MA0160.1;0.378276,MA0161.1;0,MA0162.1;0.0488928,MA0163.1;0.252535,MA0164.1;0.471016,MA0080.2;0.237846,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.00058004,MA0102.2;1.49914,MA0258.1;0.156336,MA0259.1;0.170828,MA0442.1;0
}}

Latest revision as of 15:49, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr3:122815808..122815822,-p5@Synpo2
Mm9::chr3:122816485..122816496,-p@chr3:122816485..122816496
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Mm9::chr3:122816679..122816709,-p@chr3:122816679..122816709
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Mm9::chr3:122817391..122817413,-p@chr3:122817391..122817413
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Mm9::chr3:122819903..122819914,-p@chr3:122819903..122819914
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Mm9::chr3:122819931..122819969,-p@chr3:122819931..122819969
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Mm9::chr3:122820175..122820184,-p@chr3:122820175..122820184
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Mm9::chr7:74904621..74904645,-p1@Synm
Mm9::chrX:54032853..54032872,+p3@Fhl1
Mm9::chrX:54032876..54032895,+p2@Fhl1


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:0030018Z disc0.0420970190112459
GO:0031674I band0.0420970190112459
GO:0030017sarcomere0.0420970190112459
GO:0044449contractile fiber part0.0420970190112459
GO:0030016myofibril0.0420970190112459
GO:0043292contractile fiber0.0420970190112459



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
multi-cellular organism5.89e-07333
surface structure9.24e-0722


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)
MA0003.10.0568289
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.189966
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.11.17347
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.291712
MA0042.10.76637
MA0043.10.875991
MA0046.10.816137
MA0048.10.066679
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.576005
MA0056.10
MA0057.10.216209
MA0058.10.752621
MA0059.10.777514
MA0060.10.446031
MA0061.10.504772
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.11.76619
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.000387955
MA0074.10.451832
MA0076.11.28862
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.0379749
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.642324
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.67982
MA0105.10.304995
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.500166
MA0115.10.878749
MA0116.11.13868
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.10.385513
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.11.55335
MA0145.10.042251
MA0146.10.111454
MA0147.10.530496
MA0148.10.375491
MA0149.10.2978
MA0062.20.314778
MA0035.20.44524
MA0039.20.026226
MA0138.20.590987
MA0002.20.781868
MA0137.20.713675
MA0104.20.418613
MA0047.20.495607
MA0112.20.163154
MA0065.20.373167
MA0150.10.916186
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.11.3022
MA0155.10.732931
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.550545
MA0160.10.378276
MA0161.10
MA0162.10.0488928
MA0163.10.252535
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.20.00058004
MA0102.21.49914
MA0258.10.156336
MA0259.10.170828
MA0442.10
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