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MCL coexpression mm9:622: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0005153!5.62e-08!17;UBERON:0000464!6.81e-08!57;UBERON:0000468!2.74e-07!333;UBERON:0000945!2.77e-07!16;UBERON:0010039!2.77e-07!16;UBERON:0005157!3.64e-07!20;UBERON:0002048!4.69e-07!14;UBERON:0000117!4.69e-07!14;UBERON:0000171!4.69e-07!14;UBERON:0000170!4.69e-07!14;UBERON:0005597!4.69e-07!14;UBERON:0000118!4.69e-07!14;UBERON:0000479!9.35e-07!349
|ontology_enrichment_uberon=UBERON:0005153!5.62e-08!17;UBERON:0000464!6.81e-08!57;UBERON:0000468!2.74e-07!333;UBERON:0000945!2.77e-07!16;UBERON:0010039!2.77e-07!16;UBERON:0005157!3.64e-07!20;UBERON:0002048!4.69e-07!14;UBERON:0000117!4.69e-07!14;UBERON:0000171!4.69e-07!14;UBERON:0000170!4.69e-07!14;UBERON:0005597!4.69e-07!14;UBERON:0000118!4.69e-07!14;UBERON:0000479!9.35e-07!349
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.409645,0.245304,0.303186,0.1565,0.315748,0.396495,0.630239,1.6147,0.0641678,0.357058,1.00221,0.0909495,0.407615,0.504927,0,0.587245,1.44151,0.0817508,1.35406,0.215242,0.0217402,0.406794,0.155356,0.251585,0.432737,0.265362,0.334131,0.191143,0.198166,0.860721,0.683831,0.14899,0.504772,0.169391,0.860101,0.142225,0.382372,1.87765,0.107198,0.910079,0.326286,0.2117,0.508662,0.00366166,0.293566,0.512146,0.34807,0.0642028,0.19345,0.570705,0.457464,0.736781,0.82076,0.837732,0.414119,0.200484,0.37415,0.0716833,0.412262,0.664611,0.46618,0.104381,0.560059,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.229771,0.0945081,0.251765,0.870406,0.0680008,1.26514,0.504564,0.50152,3.84449,0.218647,0.0952669,0.60374,0.464847,0.293128,0.758319,0.842691,5.2269,7.99907,0.516731,1.47691,1.03946,0.763136,0.696137,0.16091,2.50467,0.360425,0.299765,0.698838,0.512384,0.0434558,0.142282,0.683562,0.803823,2.39466,0.57027,0.3259,0.627019,1.6321,0.222586,0.216685,1.33189,0.805555,0.219561,1.69217,1.04639,0.152197,0.00984144,1.49689,0.58848,0.43155,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,2.75092,0.689622,0.969481,0.163147,0.787341,0.296885,0.940498,0.426575,1.06766,1.8901,0.274293,1.57213,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.157809,0.0549354,0.0183397,0.822286,0.115938,0.425729,0.901933,0.458393,14.3678,52.4851,0.274055,1.02862,0.757491,0.652135,0.25933,0.561023,4.94876,0.858861,1.77028,0.0142846
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.409645,0.245304,0.303186,0.1565,0.315748,0.396495,0.630239,1.6147,0.0641678,0.357058,1.00221,0.0909495,0.407615,0.504927,0,0.587245,1.44151,0.0817508,1.35406,0.215242,0.0217402,0.406794,0.155356,0.251585,0.432737,0.265362,0.334131,0.191143,0.198166,0.860721,0.683831,0.14899,0.504772,0.169391,0.860101,0.142225,0.382372,1.87765,0.107198,0.910079,0.326286,0.2117,0.508662,0.00366166,0.293566,0.512146,0.34807,0.0642028,0.19345,0.570705,0.457464,0.736781,0.82076,0.837732,0.414119,0.200484,0.37415,0.0716833,0.412262,0.664611,0.46618,0.104381,0.560059,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.229771,0.0945081,0.251765,0.870406,0.0680008,1.26514,0.504564,0.50152,3.84449,0.218647,0.0952669,0.60374,0.464847,0.293128,0.758319,0.842691,5.2269,7.99907,0.516731,1.47691,1.03946,0.763136,0.696137,0.16091,2.50467,0.360425,0.299765,0.698838,0.512384,0.0434558,0.142282,0.683562,0.803823,2.39466,0.57027,0.3259,0.627019,1.6321,0.222586,0.216685,1.33189,0.805555,0.219561,1.69217,1.04639,0.152197,0.00984144,1.49689,0.58848,0.43155,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,2.75092,0.689622,0.969481,0.163147,0.787341,0.296885,0.940498,0.426575,1.06766,1.8901,0.274293,1.57213,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.157809,0.0549354,0.0183397,0.822286,0.115938,0.425729,0.901933,0.458393,14.3678,52.4851,0.274055,1.02862,0.757491,0.652135,0.25933,0.561023,4.94876,0.858861,1.77028,0.0142846
|tfbs_overrepresentation_jaspar=MA0003.1;0.0244195,MA0004.1;0.303605,MA0006.1;0.16569,MA0007.1;0.290695,MA0009.1;0.709264,MA0014.1;0.00213944,MA0017.1;0.186015,MA0019.1;0.535691,MA0024.1;0.667197,MA0025.1;0.936082,MA0027.1;2.34178,MA0028.1;0.173587,MA0029.1;0.64639,MA0030.1;0.65267,MA0031.1;0.618697,MA0038.1;0.432665,MA0040.1;0.721328,MA0041.1;0.239557,MA0042.1;0.648006,MA0043.1;0.802848,MA0046.1;0.743934,MA0048.1;3.78307,MA0050.1;0.895831,MA0051.1;0.440863,MA0052.1;5.57889,MA0055.1;7.74654,MA0056.1;0,MA0057.1;0.983678,MA0058.1;0.635024,MA0059.1;0.233271,MA0060.1;0.108526,MA0061.1;0.129002,MA0063.1;0,MA0066.1;0.422624,MA0067.1;1.04514,MA0068.1;0.157638,MA0069.1;0.729433,MA0070.1;0.720077,MA0071.1;0.336739,MA0072.1;0.711905,MA0073.1;31.0723,MA0074.1;0.390075,MA0076.1;0.200996,MA0077.1;1.6514,MA0078.1;0.471303,MA0081.1;0.702944,MA0083.1;0.802078,MA0084.1;1.3693,MA0087.1;0.760279,MA0088.1;1.94312,MA0089.1;0,MA0090.1;0.27428,MA0091.1;0.315003,MA0092.1;0.274547,MA0093.1;0.531567,MA0095.1;0,MA0098.1;0,MA0100.1;0.379666,MA0101.1;0.240622,MA0103.1;0.19444,MA0105.1;0.491577,MA0106.1;0.478503,MA0107.1;0.189625,MA0108.2;0.557195,MA0109.1;0,MA0111.1;0.286331,MA0113.1;0.452439,MA0114.1;0.127366,MA0115.1;0.805567,MA0116.1;1.52988,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;0.0883913,MA0140.1;0.379562,MA0141.1;0.210047,MA0142.1;1.47143,MA0143.1;1.17991,MA0144.1;0.129525,MA0145.1;1.15539,MA0146.1;0.0195411,MA0147.1;0.138228,MA0148.1;0.317692,MA0149.1;21.6384,MA0062.2;0.0662974,MA0035.2;0.383789,MA0039.2;0.00267842,MA0138.2;0.523978,MA0002.2;1.55322,MA0137.2;0.207733,MA0104.2;0.099275,MA0047.2;0.431964,MA0112.2;2.04348,MA0065.2;0.4963,MA0150.1;0.290598,MA0151.1;0,MA0152.1;0.432062,MA0153.1;0.854464,MA0154.1;0.16541,MA0155.1;0.555224,MA0156.1;1.09965,MA0157.1;0.574484,MA0158.1;0,MA0159.1;0.145521,MA0160.1;0.320315,MA0161.1;0,MA0162.1;0.00450899,MA0163.1;4.41276,MA0164.1;0.408402,MA0080.2;0.190316,MA0018.2;0.417217,MA0099.2;0.518072,MA0079.2;0.75887,MA0102.2;1.42135,MA0258.1;0.118033,MA0259.1;0.130633,MA0442.1;0
}}
}}

Revision as of 12:03, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr16:14249076..14249085,-p@chr16:14249076..14249085
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Mm9::chr18:61817535..61817581,-p@chr18:61817535..61817581
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Mm9::chr18:61817610..61817626,-p@chr18:61817610..61817626
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Mm9::chr18:61817631..61817661,-p@chr18:61817631..61817661
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Mm9::chr18:61817668..61817683,-p@chr18:61817668..61817683
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Mm9::chr18:61817702..61817789,-p@chr18:61817702..61817789
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Mm9::chr18:61817794..61817810,-p@chr18:61817794..61817810
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Mm9::chr18:61817823..61817838,-p@chr18:61817823..61817838
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Mm9::chr18:61817920..61817934,-p@chr18:61817920..61817934
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Mm9::chr18:61817966..61817987,-p@chr18:61817966..61817987
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Mm9::chr18:61825138..61825156,-p1@ENSMUST00000154522
p1@uc008fcj.1
Mm9::chr19:34323746..34323750,-p@chr19:34323746..34323750
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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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
epithelial bud5.62e-0817
anatomical space6.81e-0857
multi-cellular organism2.74e-07333
stomach2.77e-0716
food storage organ2.77e-0716
epithelial fold3.64e-0720
lung4.69e-0714
respiratory tube4.69e-0714
respiration organ4.69e-0714
pair of lungs4.69e-0714
lung primordium4.69e-0714
lung bud4.69e-0714
tissue9.35e-07349


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)
MA0003.10.0244195
MA0004.10.303605
MA0006.10.16569
MA0007.10.290695
MA0009.10.709264
MA0014.10.00213944
MA0017.10.186015
MA0019.10.535691
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.10.173587
MA0029.10.64639
MA0030.10.65267
MA0031.10.618697
MA0038.10.432665
MA0040.10.721328
MA0041.10.239557
MA0042.10.648006
MA0043.10.802848
MA0046.10.743934
MA0048.13.78307
MA0050.10.895831
MA0051.10.440863
MA0052.15.57889
MA0055.17.74654
MA0056.10
MA0057.10.983678
MA0058.10.635024
MA0059.10.233271
MA0060.10.108526
MA0061.10.129002
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.10.157638
MA0069.10.729433
MA0070.10.720077
MA0071.10.336739
MA0072.10.711905
MA0073.131.0723
MA0074.10.390075
MA0076.10.200996
MA0077.11.6514
MA0078.10.471303
MA0081.10.702944
MA0083.10.802078
MA0084.11.3693
MA0087.10.760279
MA0088.11.94312
MA0089.10
MA0090.10.27428
MA0091.10.315003
MA0092.10.274547
MA0093.10.531567
MA0095.10
MA0098.10
MA0100.10.379666
MA0101.10.240622
MA0103.10.19444
MA0105.10.491577
MA0106.10.478503
MA0107.10.189625
MA0108.20.557195
MA0109.10
MA0111.10.286331
MA0113.10.452439
MA0114.10.127366
MA0115.10.805567
MA0116.11.52988
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
MA0139.10.0883913
MA0140.10.379562
MA0141.10.210047
MA0142.11.47143
MA0143.11.17991
MA0144.10.129525
MA0145.11.15539
MA0146.10.0195411
MA0147.10.138228
MA0148.10.317692
MA0149.121.6384
MA0062.20.0662974
MA0035.20.383789
MA0039.20.00267842
MA0138.20.523978
MA0002.21.55322
MA0137.20.207733
MA0104.20.099275
MA0047.20.431964
MA0112.22.04348
MA0065.20.4963
MA0150.10.290598
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.16541
MA0155.10.555224
MA0156.11.09965
MA0157.10.574484
MA0158.10
MA0159.10.145521
MA0160.10.320315
MA0161.10
MA0162.10.00450899
MA0163.14.41276
MA0164.10.408402
MA0080.20.190316
MA0018.20.417217
MA0099.20.518072
MA0079.20.75887
MA0102.21.42135
MA0258.10.118033
MA0259.10.130633
MA0442.10
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