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MCL coexpression mm9:365: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0007100!1.46e-57!18;UBERON:0000948!1.46e-57!18;UBERON:0005498!1.46e-57!18;UBERON:0004140!1.46e-57!18;UBERON:0009881!1.46e-57!18;UBERON:0004141!1.46e-57!18;UBERON:0003084!1.46e-57!18;UBERON:0007005!1.46e-57!18;UBERON:0004139!1.46e-57!18;UBERON:0004291!1.46e-57!18;UBERON:0004535!6.46e-45!23;UBERON:0001009!6.46e-45!23;UBERON:0004872!4.24e-31!33;UBERON:0003103!1.09e-23!43;UBERON:0003914!1.32e-21!47;UBERON:0003081!2.98e-11!87;UBERON:0010314!1.38e-10!92;UBERON:0000025!2.44e-08!114;UBERON:0000926!7.24e-08!120;UBERON:0004120!7.24e-08!120;UBERON:0006603!7.24e-08!120;UBERON:0004111!1.02e-07!122;UBERON:0001048!6.31e-07!134
|tfbs_overrepresentation_for_novel_motifs=0.128666,0.0750114,0.11338,0.469866,0.20878,0.493109,0.227275,0.475556,0.112313,0.025773,0.195931,0.218542,0.103499,0.23628,0.855559,0,0.38962,0.439815,0.225105,0.0868811,0.0932143,0.0140665,0.235613,0.790844,0.117721,0.256873,0.0827016,0.178177,0.0778495,0.139286,0.168752,0.476579,0.0529999,0.0671598,0.0646774,0.183458,0.0492863,0.21594,1.44429,0.0314971,0.203766,0.172188,0.705937,0.232623,0.0145942,0.147728,0.323935,0.188927,1.32904,0.573736,0.374992,0.277452,0.129123,0.603398,0.619345,0.241579,0.59572,0.209397,0.194113,0.240064,0.459084,0.284775,0.862507,0.365621,0.2499,0.399544,0.745869,1.08074,0.455021,0.938231,0.102831,0.49418,0.016171,0.650163,0.0150431,0.164312,0.581832,0.845129,0.444191,0.0954455,0.497983,0.404291,0.774697,0.737927,0.545133,0.000236268,0.246689,0.284701,0.327889,1.23935,0.811671,0.549603,1.22343,0.471954,0.0396727,0.580811,0.0234613,0.490297,0.324141,0.0378618,2.09531,0.476334,0.58753,0.375488,0.374608,0.171895,0.42513,0.186164,0.664746,0.0941582,0.124464,0.58915,0.655302,0.199544,0.818358,0.775801,0.101093,0.157255,0.390716,0.180519,0.655146,0.348339,0.258253,0.314081,0.869916,0.447391,1.22688,0.481866,0.744444,0.0610298,0.572132,0.458245,0.716744,0.701605,0.838892,6.64748,0.825822,0.991009,0.792231,1.60311,1.2081,0.750296,1.35483,0.48577,0.966134,0.513419,0.326451,1.56378,0.832054,0.0579622,0.0524131,0.0016498,0.60483,0.942446,0.251095,0.680035,1.39455,0.526055,0.127194,0.133575,0.801233,0.544365,0.447776,0.123129,0.366469,0.245542,0.724198,1.16619,4.32009e-05
|tfbs_overrepresentation_jaspar=MA0003.1;7.03331e-07,MA0004.1;0.470639,MA0006.1;0.0625076,MA0007.1;0.145624,MA0009.1;0.499857,MA0014.1;0.000408278,MA0017.1;0.074682,MA0019.1;0.344318,MA0024.1;0.461433,MA0025.1;0.712532,MA0027.1;2.09948,MA0028.1;0.067163,MA0029.1;1.96925,MA0030.1;0.448261,MA0031.1;0.417663,MA0038.1;0.256813,MA0040.1;0.510947,MA0041.1;0.717677,MA0042.1;1.13236,MA0043.1;0.586618,MA0046.1;0.531807,MA0048.1;0.110487,MA0050.1;0.180744,MA0051.1;0.263603,MA0052.1;1.28806,MA0055.1;0.0107959,MA0056.1;0,MA0057.1;0.0948771,MA0058.1;0.0984787,MA0059.1;0.105184,MA0060.1;0.0321237,MA0061.1;0.163238,MA0063.1;0,MA0066.1;0.248543,MA0067.1;0.817149,MA0068.1;0.214228,MA0069.1;0.518414,MA0070.1;0.509795,MA0071.1;0.180178,MA0072.1;0.502282,MA0073.1;6.49018e-08,MA0074.1;0.222108,MA0076.1;0.0840393,MA0077.1;0.48317,MA0078.1;0.78707,MA0081.1;0.37696,MA0083.1;1.4315,MA0084.1;1.1333,MA0087.1;0.546952,MA0088.1;0.225275,MA0089.1;0,MA0090.1;0.416778,MA0091.1;0.491727,MA0092.1;0.133927,MA0093.1;0.0709755,MA0095.1;0,MA0098.1;0,MA0100.1;0.213782,MA0101.1;0.110172,MA0103.1;0.273906,MA0105.1;0.0133959,MA0106.1;0.295186,MA0107.1;0.0769078,MA0108.2;0.363107,MA0109.1;0,MA0111.1;0.14244,MA0113.1;0.273246,MA0114.1;0.160582,MA0115.1;0.589161,MA0116.1;0.0624169,MA0117.1;0.559943,MA0119.1;0.110503,MA0122.1;0.577888,MA0124.1;0.766819,MA0125.1;1.66463,MA0130.1;0,MA0131.1;0.340612,MA0132.1;0,MA0133.1;0,MA0135.1;0.619844,MA0136.1;0.236653,MA0139.1;0.0230855,MA0140.1;0.612503,MA0141.1;0.0898383,MA0142.1;0.40532,MA0143.1;0.285913,MA0144.1;0.373777,MA0145.1;0.0580487,MA0146.1;8.22358e-05,MA0147.1;0.178333,MA0148.1;0.960549,MA0149.1;0.113293,MA0062.2;0.0144279,MA0035.2;1.16493,MA0039.2;0.000205943,MA0138.2;0.334152,MA0002.2;0.472522,MA0137.2;0.0883456,MA0104.2;0.116165,MA0047.2;0.256234,MA0112.2;0.0180044,MA0065.2;0.254194,MA0150.1;0.87649,MA0151.1;0,MA0152.1;0.256315,MA0153.1;0.635107,MA0154.1;0.10741,MA0155.1;0.0237983,MA0156.1;0.284174,MA0157.1;0.378326,MA0158.1;0,MA0159.1;0.051085,MA0160.1;0.167661,MA0161.1;0,MA0162.1;0.00131031,MA0163.1;0.000105786,MA0164.1;0.23692,MA0080.2;0.563938,MA0018.2;0.244112,MA0099.2;0.329046,MA0079.2;2.91993e-10,MA0102.2;1.18455,MA0258.1;0.145568,MA0259.1;0.0431217,MA0442.1;0
}}

Latest revision as of 15:10, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:32925450..32925471,-p@chr10:32925450..32925471
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Mm9::chr10:32926353..32926386,-p@chr10:32926353..32926386
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Mm9::chr10:32926438..32926441,-p@chr10:32926438..32926441
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Mm9::chr10:32931159..32931163,-p@chr10:32931159..32931163
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Mm9::chr13:64251414..64251425,-p13@Zfp367
Mm9::chr14:55595508..55595513,+p5@ENSMUST00000085949
Mm9::chr14:55595653..55595669,+p1@ENSMUST00000085949
Mm9::chr14:55610103..55610116,+p@chr14:55610103..55610116
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Mm9::chr14:55619969..55619994,+p@chr14:55619969..55619994
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Mm9::chr15:12611481..12611484,-p@chr15:12611481..12611484
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Mm9::chr16:96427448..96427465,+p@chr16:96427448..96427465
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Mm9::chr16:96427467..96427472,+p@chr16:96427467..96427472
+
Mm9::chr17:75240573..75240584,+p@chr17:75240573..75240584
+
Mm9::chr19:44407892..44407901,+p4@Scd4
Mm9::chr19:56832685..56832699,+p@chr19:56832685..56832699
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Mm9::chr19:56832757..56832769,+p@chr19:56832757..56832769
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Mm9::chr2:113886899..113886912,+p@chr2:113886899..113886912
+
Mm9::chr2:113886920..113886931,+p@chr2:113886920..113886931
+
Mm9::chr8:94621210..94621216,+p@chr8:94621210..94621216
+
Mm9::chr9:119419923..119419927,-p@chr9:119419923..119419927
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Mm9::chr9:66893915..66893928,-p@chr9:66893915..66893928
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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

GO IDGO nameFDR corrected p-value
GO:0004768stearoyl-CoA 9-desaturase activity0.031056579173011
GO:0016717oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water0.031056579173011



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>


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)
MA0003.17.03331e-07
MA0004.10.470639
MA0006.10.0625076
MA0007.10.145624
MA0009.10.499857
MA0014.10.000408278
MA0017.10.074682
MA0019.10.344318
MA0024.10.461433
MA0025.10.712532
MA0027.12.09948
MA0028.10.067163
MA0029.11.96925
MA0030.10.448261
MA0031.10.417663
MA0038.10.256813
MA0040.10.510947
MA0041.10.717677
MA0042.11.13236
MA0043.10.586618
MA0046.10.531807
MA0048.10.110487
MA0050.10.180744
MA0051.10.263603
MA0052.11.28806
MA0055.10.0107959
MA0056.10
MA0057.10.0948771
MA0058.10.0984787
MA0059.10.105184
MA0060.10.0321237
MA0061.10.163238
MA0063.10
MA0066.10.248543
MA0067.10.817149
MA0068.10.214228
MA0069.10.518414
MA0070.10.509795
MA0071.10.180178
MA0072.10.502282
MA0073.16.49018e-08
MA0074.10.222108
MA0076.10.0840393
MA0077.10.48317
MA0078.10.78707
MA0081.10.37696
MA0083.11.4315
MA0084.11.1333
MA0087.10.546952
MA0088.10.225275
MA0089.10
MA0090.10.416778
MA0091.10.491727
MA0092.10.133927
MA0093.10.0709755
MA0095.10
MA0098.10
MA0100.10.213782
MA0101.10.110172
MA0103.10.273906
MA0105.10.0133959
MA0106.10.295186
MA0107.10.0769078
MA0108.20.363107
MA0109.10
MA0111.10.14244
MA0113.10.273246
MA0114.10.160582
MA0115.10.589161
MA0116.10.0624169
MA0117.10.559943
MA0119.10.110503
MA0122.10.577888
MA0124.10.766819
MA0125.11.66463
MA0130.10
MA0131.10.340612
MA0132.10
MA0133.10
MA0135.10.619844
MA0136.10.236653
MA0139.10.0230855
MA0140.10.612503
MA0141.10.0898383
MA0142.10.40532
MA0143.10.285913
MA0144.10.373777
MA0145.10.0580487
MA0146.18.22358e-05
MA0147.10.178333
MA0148.10.960549
MA0149.10.113293
MA0062.20.0144279
MA0035.21.16493
MA0039.20.000205943
MA0138.20.334152
MA0002.20.472522
MA0137.20.0883456
MA0104.20.116165
MA0047.20.256234
MA0112.20.0180044
MA0065.20.254194
MA0150.10.87649
MA0151.10
MA0152.10.256315
MA0153.10.635107
MA0154.10.10741
MA0155.10.0237983
MA0156.10.284174
MA0157.10.378326
MA0158.10
MA0159.10.051085
MA0160.10.167661
MA0161.10
MA0162.10.00131031
MA0163.10.000105786
MA0164.10.23692
MA0080.20.563938
MA0018.20.244112
MA0099.20.329046
MA0079.22.91993e-10
MA0102.21.18455
MA0258.10.145568
MA0259.10.0431217
MA0442.10
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