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MCL coexpression mm9:1547: Difference between revisions

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{{MCL_coexpression_mm9
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kinase binding;0.0260166174162555;70834!GO:0007243;protein kinase cascade;0.0260166174162555;14674,70834!GO:0019894;kinesin binding;0.046628077004361;70834!GO:0030168;platelet activation;0.046628077004361;14674!GO:0051260;protein homooligomerization;0.046628077004361;70834!GO:0001569;patterning of blood vessels;0.046628077004361;14674!GO:0051259;protein oligomerization;0.046628077004361;70834!GO:0005834;heterotrimeric G-protein complex;0.046628077004361;14674!GO:0000187;activation of MAPK activity;0.046628077004361;70834!GO:0009880;embryonic pattern specification;0.046628077004361;14674!GO:0043406;positive regulation of MAP kinase activity;0.046628077004361;70834!GO:0022603;regulation of anatomical structure morphogenesis;0.046628077004361;14674!GO:0008360;regulation of cell shape;0.046628077004361;14674!GO:0022604;regulation of cell morphogenesis;0.046628077004361;14674!GO:0019901;protein kinase binding;0.046628077004361;70834!GO:0019897;extrinsic to plasma 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|gostat_on_MCL_coexpression=GO:0008432;JUN kinase binding;0.0260166174162555;70834!GO:0007243;protein kinase cascade;0.0260166174162555;14674,70834!GO:0019894;kinesin binding;0.046628077004361;70834!GO:0030168;platelet activation;0.046628077004361;14674!GO:0051260;protein homooligomerization;0.046628077004361;70834!GO:0001569;patterning of blood vessels;0.046628077004361;14674!GO:0051259;protein oligomerization;0.046628077004361;70834!GO:0005834;heterotrimeric G-protein complex;0.046628077004361;14674!GO:0000187;activation of MAPK activity;0.046628077004361;70834!GO:0009880;embryonic pattern specification;0.046628077004361;14674!GO:0043406;positive regulation of MAP kinase activity;0.046628077004361;70834!GO:0022603;regulation of anatomical structure morphogenesis;0.046628077004361;14674!GO:0008360;regulation of cell shape;0.046628077004361;14674!GO:0022604;regulation of cell morphogenesis;0.046628077004361;14674!GO:0019901;protein kinase binding;0.046628077004361;70834!GO:0019897;extrinsic to plasma membrane;0.046628077004361;14674!GO:0019900;kinase binding;0.046628077004361;70834!GO:0007242;intracellular signaling cascade;0.046628077004361;14674,70834!GO:0007596;blood coagulation;0.046628077004361;14674!GO:0030334;regulation of cell migration;0.046628077004361;14674!GO:0007599;hemostasis;0.046628077004361;14674!GO:0050817;coagulation;0.046628077004361;14674!GO:0048754;branching morphogenesis of a tube;0.046628077004361;14674!GO:0051270;regulation of cell motility;0.046628077004361;14674!GO:0043405;regulation of MAP kinase activity;0.046628077004361;70834!GO:0001763;morphogenesis of a branching structure;0.046628077004361;14674!GO:0040012;regulation of locomotion;0.046628077004361;14674!GO:0019898;extrinsic to membrane;0.0482174233874129;14674!GO:0050878;regulation of body fluid levels;0.0482174233874129;14674!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!7.57e-08!31
|tfbs_overrepresentation_for_novel_motifs=0.557864,2.0905,0.529553,0.603273,0.406364,0.618805,0.715644,0.300268,0.836099,1.78433,1.60538,0.702872,0.300533,0.728641,0.424775,0,0.930881,0.397593,0.283802,0.545768,0.489529,0.44579,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.253145,3.88391,0.791367,0.384813,0.699032,0.360612,1.57622,0.401916,0.631725,0.134724,0.426986,2.97127,0.591277,1.97509,0.658142,0.115788,0.459555,0.912738,0.786094,0.627649,1.18062,1.19842,0.73621,0.469329,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,1.26875,0.827208,11.3205,1.23259,2.03319,0.686172,0.70455,0.835925,0.997094,0.494135,0.308173,0.948899,0.794502,0.293164,1.1148,11.9908,0.0882907,4.37385,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.806207,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,1.52669,0.97421,0.653843,2.15911,2.13274,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,4.37906,1.47653,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.44142,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,1.05179,1.89099,16.4745,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,1.39093,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,6.23752
|tfbs_overrepresentation_jaspar=MA0003.1;3.33169,MA0004.1;1.46913,MA0006.1;2.8257,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;4.67725,MA0017.1;0.449113,MA0019.1;0.874061,MA0024.1;1.01759,MA0025.1;1.30092,MA0027.1;2.72141,MA0028.1;0.43138,MA0029.1;0.995171,MA0030.1;1.00195,MA0031.1;0.965177,MA0038.1;0.757669,MA0040.1;1.07552,MA0041.1;0.522007,MA0042.1;0.507715,MA0043.1;1.1618,MA0046.1;1.09955,MA0048.1;1.7574,MA0050.1;0.645342,MA0051.1;0.767098,MA0052.1;1.08379,MA0055.1;1.50466,MA0056.1;0,MA0057.1;0.562607,MA0058.1;3.19314,MA0059.1;0.513699,MA0060.1;0.881183,MA0061.1;0.364227,MA0063.1;0,MA0066.1;0.746072,MA0067.1;1.41352,MA0068.1;0.197245,MA0069.1;1.08414,MA0070.1;1.07418,MA0071.1;0.644448,MA0072.1;1.06547,MA0073.1;0.65603,MA0074.1;0.708108,MA0076.1;0.470037,MA0077.1;1.04318,MA0078.1;0.801834,MA0081.1;0.53877,MA0083.1;1.16099,MA0084.1;1.74401,MA0087.1;1.11687,MA0088.1;5.20048,MA0089.1;0,MA0090.1;0.566938,MA0091.1;0.617887,MA0092.1;0.567278,MA0093.1;2.92084,MA0095.1;0,MA0098.1;0,MA0100.1;1.66135,MA0101.1;0.523409,MA0103.1;0.460936,MA0105.1;0.248108,MA0106.1;4.53436,MA0107.1;0.454197,MA0108.2;0.897859,MA0109.1;0,MA0111.1;0.582193,MA0113.1;0.780358,MA0114.1;0.361633,MA0115.1;1.16466,MA0116.1;0.419688,MA0117.1;1.13165,MA0119.1;0.524046,MA0122.1;1.15196,MA0124.1;1.35963,MA0125.1;1.28445,MA0130.1;0,MA0131.1;0.869325,MA0132.1;0,MA0133.1;0,MA0135.1;1.19898,MA0136.1;0.729175,MA0139.1;0.8026,MA0140.1;0.695713,MA0141.1;0.482463,MA0142.1;0.950155,MA0143.1;0.797553,MA0144.1;0.365053,MA0145.1;0.157686,MA0146.1;3.56088,MA0147.1;0.378658,MA0148.1;0.621195,MA0149.1;19.0921,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;5.64811,MA0138.2;0.861035,MA0002.2;0.299191,MA0137.2;0.479301,MA0104.2;1.52809,MA0047.2;0.75686,MA0112.2;2.84348,MA0065.2;0.477991,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;0.203217,MA0155.1;0.515751,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;0.389847,MA0160.1;0.624415,MA0161.1;0,MA0162.1;4.50638,MA0163.1;0.855539,MA0164.1;0.729558,MA0080.2;0.455167,MA0018.2;0.739807,MA0099.2;0.854449,MA0079.2;13.3153,MA0102.2;1.79669,MA0258.1;1.63953,MA0259.1;3.53372,MA0442.1;0
}}

Latest revision as of 17:06, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:109224085..109224168,+p1@Gna13
Mm9::chr11:109224169..109224182,+p4@Gna13
Mm9::chr11:109224197..109224221,+p3@Gna13
Mm9::chr11:93857396..93857413,+p1@Spag9
Mm9::chr8:125566132..125566143,-p3@Ankrd11


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:0008432JUN kinase binding0.0260166174162555
GO:0007243protein kinase cascade0.0260166174162555
GO:0019894kinesin binding0.046628077004361
GO:0030168platelet activation0.046628077004361
GO:0051260protein homooligomerization0.046628077004361
GO:0001569patterning of blood vessels0.046628077004361
GO:0051259protein oligomerization0.046628077004361
GO:0005834heterotrimeric G-protein complex0.046628077004361
GO:0000187activation of MAPK activity0.046628077004361
GO:0009880embryonic pattern specification0.046628077004361
GO:0043406positive regulation of MAP kinase activity0.046628077004361
GO:0022603regulation of anatomical structure morphogenesis0.046628077004361
GO:0008360regulation of cell shape0.046628077004361
GO:0022604regulation of cell morphogenesis0.046628077004361
GO:0019901protein kinase binding0.046628077004361
GO:0019897extrinsic to plasma membrane0.046628077004361
GO:0019900kinase binding0.046628077004361
GO:0007242intracellular signaling cascade0.046628077004361
GO:0007596blood coagulation0.046628077004361
GO:0030334regulation of cell migration0.046628077004361
GO:0007599hemostasis0.046628077004361
GO:0050817coagulation0.046628077004361
GO:0048754branching morphogenesis of a tube0.046628077004361
GO:0051270regulation of cell motility0.046628077004361
GO:0043405regulation of MAP kinase activity0.046628077004361
GO:0001763morphogenesis of a branching structure0.046628077004361
GO:0040012regulation of locomotion0.046628077004361
GO:0019898extrinsic to membrane0.0482174233874129
GO:0050878regulation of body fluid levels0.0482174233874129



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
intestine7.57e-0831


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)
MA0003.13.33169
MA0004.11.46913
MA0006.12.8257
MA0007.10.587678
MA0009.11.06266
MA0014.14.67725
MA0017.10.449113
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.11.7574
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.11.50466
MA0056.10
MA0057.10.562607
MA0058.13.19314
MA0059.10.513699
MA0060.10.881183
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.65603
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.15.20048
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.12.92084
MA0095.10
MA0098.10
MA0100.11.66135
MA0101.10.523409
MA0103.10.460936
MA0105.10.248108
MA0106.14.53436
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.10.419688
MA0117.11.13165
MA0119.10.524046
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.8026
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.10.365053
MA0145.10.157686
MA0146.13.56088
MA0147.10.378658
MA0148.10.621195
MA0149.119.0921
MA0062.20.254018
MA0035.20.700704
MA0039.25.64811
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.21.52809
MA0047.20.75686
MA0112.22.84348
MA0065.20.477991
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.203217
MA0155.10.515751
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.14.50638
MA0163.10.855539
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.213.3153
MA0102.21.79669
MA0258.11.63953
MA0259.13.53372
MA0442.10
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