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MCL coexpression mm9:716: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000945!1.17e-12!16;UBERON:0010039!1.17e-12!16
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.352573,0.297937,0.360062,0.580303,0.975411,0.458558,0.392928,0.816027,0.255527,0.417132,0.447169,0.393382,0.470194,0.214197,0,0.656089,0.564478,0.364803,0.451901,1.34675,0.145076,0.469335,0.577226,0.304728,0.496413,0.709649,0.392919,0.238759,0.572447,0.379806,0.754912,0.560002,0.31333,0.214608,0.386349,0.184038,0.443753,0.166348,0.143746,0.196807,0.38461,0.307718,0.215898,0.0422997,0.349801,0.578773,0.407653,0.479635,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,0.47699,0.249055,0.435119,0.68053,0.47505,0.735292,0.531188,0.140453,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,0.03967,0.944464,0.0968968,0.300089,0.646602,0.567793,1.70838,0.74114,0.406536,0.673009,0.529804,0.380754,0.830765,0.0122854,1.64605,0.271714,0.583509,1.55487,1.11522,0.835661,0.767462,0.592123,0.163126,0.892226,0.122617,0.770215,0.57902,0.50528,1.03532,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.845852,0.878738,0.26996,0.421988,1.12221,0.5687,0.0839537,0.363536,0.657356,1.02287,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.59809,0.86025,0.353344,1.01535,0.48999,1.14365,0.0358067,1.57798,1.00286,1.09487,1.92247,1.5231,1.0508,1.27006,0.765172,0.632358,1.00091,1.42284,1.88287,0.331322,0.201635,0.275954,0.0316649,0.895708,0.153911,0.489108,0.976367,0.523103,0.637798,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.0896551
|tfbs_overrepresentation_jaspar=MA0003.1;0.00561553,MA0004.1;0.360508,MA0006.1;0.210471,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;0.0290544,MA0017.1;1.22627,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;0.219287,MA0029.1;0.716673,MA0030.1;0.723093,MA0031.1;0.688336,MA0038.1;0.496338,MA0040.1;0.79313,MA0041.1;0.79301,MA0042.1;0.279998,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.236433,MA0050.1;0.396459,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.576005,MA0056.1;0,MA0057.1;0.817159,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;0.145297,MA0061.1;0.16896,MA0063.1;0,MA0066.1;1.21924,MA0067.1;1.12095,MA0068.1;0.0621035,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;0.395679,MA0072.1;0.783532,MA0073.1;0.593688,MA0074.1;0.451832,MA0076.1;0.249619,MA0077.1;0.762273,MA0078.1;1.32713,MA0081.1;0.824359,MA0083.1;0.875209,MA0084.1;1.44691,MA0087.1;0.832758,MA0088.1;0.34573,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;0.329444,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;0.292867,MA0103.1;0.67982,MA0105.1;0.632131,MA0106.1;1.34295,MA0107.1;0.66744,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.342068,MA0113.1;0.516916,MA0114.1;0.500166,MA0115.1;3.36914,MA0116.1;0.604438,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;0.719522,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.169559,MA0145.1;0.163161,MA0146.1;0.111454,MA0147.1;0.179496,MA0148.1;1.74019,MA0149.1;0.2978,MA0062.2;0.314778,MA0035.2;0.44524,MA0039.2;0.0020212,MA0138.2;0.590987,MA0002.2;0.123715,MA0137.2;0.257017,MA0104.2;0.134457,MA0047.2;0.495607,MA0112.2;1.03068,MA0065.2;1.03323,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;0.501928,MA0155.1;1.12565,MA0156.1;0.694831,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.550545,MA0160.1;0.378276,MA0161.1;0,MA0162.1;0.0488928,MA0163.1;0.121321,MA0164.1;1.1874,MA0080.2;0.669221,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.00149959,MA0102.2;1.49914,MA0258.1;0.921856,MA0259.1;0.170828,MA0442.1;0
}}

Latest revision as of 15:46, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:94426183..94426200,+p2@Chad
Mm9::chr14:80298248..80298255,+p@chr14:80298248..80298255
+
Mm9::chr15:101677281..101677301,-p@chr15:101677281..101677301
-
Mm9::chr18:77358548..77358566,+p@chr18:77358548..77358566
+
Mm9::chr19:10742100..10742107,-p@chr19:10742100..10742107
-
Mm9::chr19:10743487..10743496,-p@chr19:10743487..10743496
-
Mm9::chr2:154017004..154017009,+p@chr2:154017004..154017009
+
Mm9::chr3:107014235..107014244,-p@chr3:107014235..107014244
-
Mm9::chr3:107014261..107014302,-p@chr3:107014261..107014302
-
Mm9::chr9:62221264..62221295,+p17@Anp32a


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:0016363nuclear matrix0.0345016371359775



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
stomach1.17e-1216
food storage organ1.17e-1216


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)
MA0003.10.00561553
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.0290544
MA0017.11.22627
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.79301
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.236433
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.576005
MA0056.10
MA0057.10.817159
MA0058.10.273976
MA0059.10.28489
MA0060.10.145297
MA0061.10.16896
MA0063.10
MA0066.11.21924
MA0067.11.12095
MA0068.10.0621035
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.593688
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.11.32713
MA0081.10.824359
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.34573
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.67982
MA0105.10.632131
MA0106.11.34295
MA0107.10.66744
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.500166
MA0115.13.36914
MA0116.10.604438
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
MA0141.10.719522
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.10.163161
MA0146.10.111454
MA0147.10.179496
MA0148.11.74019
MA0149.10.2978
MA0062.20.314778
MA0035.20.44524
MA0039.20.0020212
MA0138.20.590987
MA0002.20.123715
MA0137.20.257017
MA0104.20.134457
MA0047.20.495607
MA0112.21.03068
MA0065.21.03323
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.501928
MA0155.11.12565
MA0156.10.694831
MA0157.10.642984
MA0158.10
MA0159.10.550545
MA0160.10.378276
MA0161.10
MA0162.10.0488928
MA0163.10.121321
MA0164.11.1874
MA0080.20.669221
MA0018.20.480226
MA0099.20.584892
MA0079.20.00149959
MA0102.21.49914
MA0258.10.921856
MA0259.10.170828
MA0442.10
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