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MCL coexpression mm9:625: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0001017!4.29e-11!73;UBERON:0001016!2.26e-10!75;UBERON:0002020!2.06e-08!34;UBERON:0000073!1.42e-07!54
|ontology_enrichment_uberon=UBERON:0001017!4.29e-11!73;UBERON:0001016!2.26e-10!75;UBERON:0002020!2.06e-08!34;UBERON:0000073!1.42e-07!54
|tfbs_overrepresentation_for_novel_motifs=0.737036,0.110566,0.245304,0.303186,0.1565,0.847245,0.396495,0.630239,0.320069,0.169674,0.357058,1.00221,0.630954,0.407615,0.504927,0,0.587245,0.150639,0.0817508,0.945936,0.616152,0.0948826,0.406794,0.155356,0.251585,0.432737,0.0768517,0.888376,0.191143,0.198166,0.321757,0.683831,0.455295,0.504772,0.169391,0.0172637,0.438297,0.382372,0.398832,0.347926,0.153518,0.326286,0.2117,0.170547,0.283915,0.293566,0.512146,0.34807,0.0642028,0.19345,0.570705,0.457464,0.0502729,1.91948,0.837732,0.414119,0.200484,0.37415,0.250759,0.412262,1.59636,0.46618,0.340458,1.377,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.229771,0.0945081,0.473369,0.870406,0.883633,0.0619297,0.0658238,0.50152,0.648171,0.218647,0.316038,1.46901,0.464847,0.0868537,0.758319,0.0325399,0.00753188,0.198381,1.28512,1.47691,1.03946,0.763136,0.696137,0.16091,1.27589,0.11194,0.0892768,0.698838,0.512384,0.166936,0.142282,0.683562,0.803823,0.571268,0.57027,0.3259,0.627019,0.344504,1.18615,0.216685,0.261228,1.8882,0.219561,0.361667,1.04639,0.904538,0.00984144,0.826326,0.58848,0.850885,0.875675,0.540309,1.94166,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.163147,0.787341,1.46242,0.940498,0.426575,1.06766,0.0212043,0.274293,0.327523,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.157809,0.777047,0.404179,0.822286,0.115938,1.08967,0.901933,0.458393,0.178202,0.265096,0.274055,3.83245,0.757491,0.652135,0.25933,1.37904,1.07498,0.141416,0.384198,0.0476708
|tfbs_overrepresentation_for_novel_motifs=0.737036,0.110566,0.245304,0.303186,0.1565,0.847245,0.396495,0.630239,0.320069,0.169674,0.357058,1.00221,0.630954,0.407615,0.504927,0,0.587245,0.150639,0.0817508,0.945936,0.616152,0.0948826,0.406794,0.155356,0.251585,0.432737,0.0768517,0.888376,0.191143,0.198166,0.321757,0.683831,0.455295,0.504772,0.169391,0.0172637,0.438297,0.382372,0.398832,0.347926,0.153518,0.326286,0.2117,0.170547,0.283915,0.293566,0.512146,0.34807,0.0642028,0.19345,0.570705,0.457464,0.0502729,1.91948,0.837732,0.414119,0.200484,0.37415,0.250759,0.412262,1.59636,0.46618,0.340458,1.377,0.424276,0.598412,0.970969,1.3158,0.660133,1.17005,0.229771,0.0945081,0.473369,0.870406,0.883633,0.0619297,0.0658238,0.50152,0.648171,0.218647,0.316038,1.46901,0.464847,0.0868537,0.758319,0.0325399,0.00753188,0.198381,1.28512,1.47691,1.03946,0.763136,0.696137,0.16091,1.27589,0.11194,0.0892768,0.698838,0.512384,0.166936,0.142282,0.683562,0.803823,0.571268,0.57027,0.3259,0.627019,0.344504,1.18615,0.216685,0.261228,1.8882,0.219561,0.361667,1.04639,0.904538,0.00984144,0.826326,0.58848,0.850885,0.875675,0.540309,1.94166,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.163147,0.787341,1.46242,0.940498,0.426575,1.06766,0.0212043,0.274293,0.327523,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.157809,0.777047,0.404179,0.822286,0.115938,1.08967,0.901933,0.458393,0.178202,0.265096,0.274055,3.83245,0.757491,0.652135,0.25933,1.37904,1.07498,0.141416,0.384198,0.0476708
|tfbs_overrepresentation_jaspar=MA0003.1;1.06346,MA0004.1;0.303605,MA0006.1;0.496735,MA0007.1;1.43999,MA0009.1;0.709264,MA0014.1;0.544741,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;1.5004,MA0038.1;1.1047,MA0040.1;0.721328,MA0041.1;0.673209,MA0042.1;0.228771,MA0043.1;0.802848,MA0046.1;0.743934,MA0048.1;0.382561,MA0050.1;0.895831,MA0051.1;1.12244,MA0052.1;0.729105,MA0055.1;0.624457,MA0056.1;0,MA0057.1;0.0386961,MA0058.1;0.223242,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;1.919,MA0069.1;0.729433,MA0070.1;0.720077,MA0071.1;0.336739,MA0072.1;0.711905,MA0073.1;0.00478565,MA0074.1;0.390075,MA0076.1;1.10234,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;0.274547,MA0093.1;0.179936,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;0.189625,MA0108.2;0.557195,MA0109.1;0,MA0111.1;0.286331,MA0113.1;0.452439,MA0114.1;0.400482,MA0115.1;0.805567,MA0116.1;0.165534,MA0117.1;0.774259,MA0119.1;0.676816,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;0.297344,MA0140.1;0.379562,MA0141.1;0.210047,MA0142.1;0.604892,MA0143.1;0.467531,MA0144.1;3.28807,MA0145.1;0.494714,MA0146.1;0.266418,MA0147.1;0.138228,MA0148.1;0.317692,MA0149.1;0.245177,MA0062.2;0.870192,MA0035.2;0.383789,MA0039.2;0.000528196,MA0138.2;0.523978,MA0002.2;0.302282,MA0137.2;1.76858,MA0104.2;0.099275,MA0047.2;0.431964,MA0112.2;0.025769,MA0065.2;0.109524,MA0150.1;0.290598,MA0151.1;0,MA0152.1;0.432062,MA0153.1;0.854464,MA0154.1;0.16541,MA0155.1;0.127763,MA0156.1;0.200311,MA0157.1;1.40745,MA0158.1;0,MA0159.1;0.446593,MA0160.1;0.320315,MA0161.1;0,MA0162.1;0.509255,MA0163.1;0.155652,MA0164.1;1.052,MA0080.2;0.556674,MA0018.2;0.417217,MA0099.2;1.28797,MA0079.2;0.116845,MA0102.2;1.42135,MA0258.1;0.118033,MA0259.1;0.408856,MA0442.1;0
}}
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Revision as of 12:03, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr17:39983397..39983449,+p@chr17:39983397..39983449
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Mm9::chr17:39983672..39983703,+p@chr17:39983672..39983703
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Mm9::chr17:39984122..39984160,+p@chr17:39984122..39984160
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Mm9::chr17:39984507..39984537,+p@chr17:39984507..39984537
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Mm9::chr17:39984661..39984730,+p@chr17:39984661..39984730
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Mm9::chr17:39984734..39984757,+p@chr17:39984734..39984757
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Mm9::chr17:39984764..39984774,+p@chr17:39984764..39984774
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Mm9::chr6:3151462..3151521,+p@chr6:3151462..3151521
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Mm9::chr7:104698287..104698300,-p@chr7:104698287..104698300
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Mm9::chr9:123371046..123371102,+p@chr9:123371046..123371102
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Mm9::chrX:113400988..113400991,-p@chrX:113400988..113400991
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Mm9::chrX:23585586..23585631,+p@chrX:23585586..23585631
+


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
central nervous system4.29e-1173
nervous system2.26e-1075
gray matter2.06e-0834
regional part of nervous system1.42e-0754


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)
MA0003.11.06346
MA0004.10.303605
MA0006.10.496735
MA0007.11.43999
MA0009.10.709264
MA0014.10.544741
MA0017.10.186015
MA0019.10.535691
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.10.173587
MA0029.10.64639
MA0030.10.65267
MA0031.11.5004
MA0038.11.1047
MA0040.10.721328
MA0041.10.673209
MA0042.10.228771
MA0043.10.802848
MA0046.10.743934
MA0048.10.382561
MA0050.10.895831
MA0051.11.12244
MA0052.10.729105
MA0055.10.624457
MA0056.10
MA0057.10.0386961
MA0058.10.223242
MA0059.10.233271
MA0060.10.108526
MA0061.10.129002
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.11.919
MA0069.10.729433
MA0070.10.720077
MA0071.10.336739
MA0072.10.711905
MA0073.10.00478565
MA0074.10.390075
MA0076.11.10234
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
MA0092.10.274547
MA0093.10.179936
MA0095.10
MA0098.10
MA0100.10.379666
MA0101.10.240622
MA0103.10.19444
MA0105.10.0633795
MA0106.10.478503
MA0107.10.189625
MA0108.20.557195
MA0109.10
MA0111.10.286331
MA0113.10.452439
MA0114.10.400482
MA0115.10.805567
MA0116.10.165534
MA0117.10.774259
MA0119.10.676816
MA0122.10.793507
MA0124.10.992825
MA0125.10.920215
MA0130.10
MA0131.10.531427
MA0132.10
MA0133.10
MA0135.10.838263
MA0136.10.408073
MA0139.10.297344
MA0140.10.379562
MA0141.10.210047
MA0142.10.604892
MA0143.10.467531
MA0144.13.28807
MA0145.10.494714
MA0146.10.266418
MA0147.10.138228
MA0148.10.317692
MA0149.10.245177
MA0062.20.870192
MA0035.20.383789
MA0039.20.000528196
MA0138.20.523978
MA0002.20.302282
MA0137.21.76858
MA0104.20.099275
MA0047.20.431964
MA0112.20.025769
MA0065.20.109524
MA0150.10.290598
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.16541
MA0155.10.127763
MA0156.10.200311
MA0157.11.40745
MA0158.10
MA0159.10.446593
MA0160.10.320315
MA0161.10
MA0162.10.509255
MA0163.10.155652
MA0164.11.052
MA0080.20.556674
MA0018.20.417217
MA0099.21.28797
MA0079.20.116845
MA0102.21.42135
MA0258.10.118033
MA0259.10.408856
MA0442.10
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