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MCL coexpression mm9:1557: Difference between revisions

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{{MCL_coexpression_mm9
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guanyl-nucleotide exchange factor activity;0.00854560379022112;57257!GO:0006906;vesicle fusion;0.00854560379022112;57257!GO:0043552;positive regulation of phosphoinositide 3-kinase activity;0.00854560379022112;57257!GO:0043550;regulation of lipid kinase activity;0.00854560379022112;57257!GO:0043551;regulation of phosphoinositide 3-kinase activity;0.00854560379022112;57257!GO:0005154;epidermal growth factor receptor binding;0.00996932479428507;57257!GO:0045785;positive regulation of cell adhesion;0.014646796983947;57257!GO:0030032;lamellipodium biogenesis;0.0160186172417038;57257!GO:0006944;membrane fusion;0.0208795244679757;57257!GO:0007242;intracellular signaling cascade;0.0226924411442025;57257,56193!GO:0019992;diacylglycerol binding;0.0314652936105574;57257!GO:0030155;regulation of cell adhesion;0.0314652936105574;57257!GO:0030031;cell projection biogenesis;0.0314652936105574;57257!GO:0005089;Rho guanyl-nucleotide exchange factor activity;0.0314652936105574;57257!GO:0035023;regulation of Rho protein signal transduction;0.0314652936105574;57257!GO:0005088;Ras guanyl-nucleotide exchange factor activity;0.0314652936105574;57257!GO:0043087;regulation of GTPase activity;0.0321196813119172;57257!GO:0007266;Rho protein signal transduction;0.0369436987527164;57257!GO:0033674;positive regulation of kinase activity;0.0369436987527164;57257!GO:0051347;positive regulation of transferase activity;0.0369436987527164;57257!GO:0007229;integrin-mediated signaling pathway;0.0369436987527164;57257!GO:0046578;regulation of Ras protein signal transduction;0.0387425536716064;57257!GO:0051336;regulation of hydrolase activity;0.0403833373613207;57257!GO:0005085;guanyl-nucleotide exchange factor activity;0.0410552713598788;57257!GO:0051056;regulation of small GTPase mediated signal transduction;0.0410552713598788;57257!GO:0043549;regulation of kinase activity;0.0410552713598788;57257!GO:0043085;positive regulation of catalytic 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|gostat_on_MCL_coexpression=GO:0030676;Rac guanyl-nucleotide exchange factor activity;0.00854560379022112;57257!GO:0006906;vesicle fusion;0.00854560379022112;57257!GO:0043552;positive regulation of phosphoinositide 3-kinase activity;0.00854560379022112;57257!GO:0043550;regulation of lipid kinase activity;0.00854560379022112;57257!GO:0043551;regulation of phosphoinositide 3-kinase activity;0.00854560379022112;57257!GO:0005154;epidermal growth factor receptor binding;0.00996932479428507;57257!GO:0045785;positive regulation of cell adhesion;0.014646796983947;57257!GO:0030032;lamellipodium biogenesis;0.0160186172417038;57257!GO:0006944;membrane fusion;0.0208795244679757;57257!GO:0007242;intracellular signaling cascade;0.0226924411442025;57257,56193!GO:0019992;diacylglycerol binding;0.0314652936105574;57257!GO:0030155;regulation of cell adhesion;0.0314652936105574;57257!GO:0030031;cell projection biogenesis;0.0314652936105574;57257!GO:0005089;Rho guanyl-nucleotide exchange factor activity;0.0314652936105574;57257!GO:0035023;regulation of Rho protein signal transduction;0.0314652936105574;57257!GO:0005088;Ras guanyl-nucleotide exchange factor activity;0.0314652936105574;57257!GO:0043087;regulation of GTPase activity;0.0321196813119172;57257!GO:0007266;Rho protein signal transduction;0.0369436987527164;57257!GO:0033674;positive regulation of kinase activity;0.0369436987527164;57257!GO:0051347;positive regulation of transferase activity;0.0369436987527164;57257!GO:0007229;integrin-mediated signaling pathway;0.0369436987527164;57257!GO:0046578;regulation of Ras protein signal transduction;0.0387425536716064;57257!GO:0051336;regulation of hydrolase activity;0.0403833373613207;57257!GO:0005085;guanyl-nucleotide exchange factor activity;0.0410552713598788;57257!GO:0051056;regulation of small GTPase mediated signal transduction;0.0410552713598788;57257!GO:0043549;regulation of kinase activity;0.0410552713598788;57257!GO:0043085;positive regulation of catalytic activity;0.0410552713598788;57257!GO:0051338;regulation of transferase activity;0.0410552713598788;57257!GO:0007265;Ras protein signal transduction;0.0428408209211364;57257!GO:0005083;small GTPase regulator activity;0.0428408209211364;57257!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=
|tfbs_overrepresentation_for_novel_motifs=0.557864,1.02681,1.31238,0.603273,1.04755,0.618805,0.715644,0.300268,0.310789,0.746305,3.93412,0.702872,0.300533,0.728641,0.424775,0,0.930881,0.397593,0.283802,1.0421,0.489529,0.145201,0.727684,0.404661,2.28527,0.757752,0.274609,1.54767,0.456327,0.645258,0.626183,1.03545,0.395107,0.704734,1.08876,0.20704,2.66119,1.66799,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.227872,0.591277,1.97509,3.88758,0.115788,0.459555,0.912738,0.786094,0.220111,1.18062,1.19842,1.74508,0.469329,1.64777,0.26467,0.734051,1.01481,0.796017,0.323911,3.43832,1.76944,0.943088,1.33705,1.68977,1.00999,1.54147,1.26875,0.30684,0.904104,1.23259,1.31774,0.686172,0.70455,0.835925,0.997094,0.494135,0.308173,3.58664,0.794502,0.293164,1.1148,7.22656,0.0882907,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,1.24825,1.23125,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,2.24107,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,3.615,1.3055,0.750642,1.43666,0.143464,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,1.93643,1.18223,0.343194,0.749664,1.26545,0.787153,0.438007,0.555203,0.566652,1.39653,1.11392,1.00137,1.35103,0.90208,0.741834,0.997706,0.701187,3.33644
|tfbs_overrepresentation_jaspar=MA0003.1;5.19399,MA0004.1;0.603793,MA0006.1;0.419915,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;2.11217,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;0.205696,MA0050.1;0.645342,MA0051.1;0.767098,MA0052.1;1.08379,MA0055.1;0.0851423,MA0056.1;0,MA0057.1;0.192781,MA0058.1;0.50032,MA0059.1;0.513699,MA0060.1;0.330907,MA0061.1;0.955135,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;1.13827,MA0074.1;1.68683,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;1.42769,MA0089.1;0,MA0090.1;0.566938,MA0091.1;0.617887,MA0092.1;0.567278,MA0093.1;0.440484,MA0095.1;0,MA0098.1;0,MA0100.1;0.695835,MA0101.1;0.523409,MA0103.1;0.460936,MA0105.1;1.28296,MA0106.1;0.809991,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;0.822925,MA0147.1;0.378658,MA0148.1;0.621195,MA0149.1;0.529387,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;0.749235,MA0138.2;0.861035,MA0002.2;0.809945,MA0137.2;1.20517,MA0104.2;1.52809,MA0047.2;0.75686,MA0112.2;0.157681,MA0065.2;0.158101,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;3.26157,MA0155.1;0.515751,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;1.01146,MA0160.1;0.624415,MA0161.1;0,MA0162.1;0.245828,MA0163.1;2.36557,MA0164.1;0.729558,MA0080.2;1.15331,MA0018.2;0.739807,MA0099.2;0.854449,MA0079.2;1.7149,MA0102.2;1.79669,MA0258.1;0.346619,MA0259.1;0.366802,MA0442.1;0
}}

Latest revision as of 17:07, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:16908650..16908690,-p1@Plek
Mm9::chr3:109143621..109143633,+p8@Vav3
Mm9::chr3:109143649..109143661,+p4@Vav3
Mm9::chr3:109143672..109143705,+p1@Vav3
Mm9::chr3:109143711..109143738,+p3@Vav3


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:0030676Rac guanyl-nucleotide exchange factor activity0.00854560379022112
GO:0006906vesicle fusion0.00854560379022112
GO:0043552positive regulation of phosphoinositide 3-kinase activity0.00854560379022112
GO:0043550regulation of lipid kinase activity0.00854560379022112
GO:0043551regulation of phosphoinositide 3-kinase activity0.00854560379022112
GO:0005154epidermal growth factor receptor binding0.00996932479428507
GO:0045785positive regulation of cell adhesion0.014646796983947
GO:0030032lamellipodium biogenesis0.0160186172417038
GO:0006944membrane fusion0.0208795244679757
GO:0007242intracellular signaling cascade0.0226924411442025
GO:0019992diacylglycerol binding0.0314652936105574
GO:0030155regulation of cell adhesion0.0314652936105574
GO:0030031cell projection biogenesis0.0314652936105574
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0314652936105574
GO:0035023regulation of Rho protein signal transduction0.0314652936105574
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0314652936105574
GO:0043087regulation of GTPase activity0.0321196813119172
GO:0007266Rho protein signal transduction0.0369436987527164
GO:0033674positive regulation of kinase activity0.0369436987527164
GO:0051347positive regulation of transferase activity0.0369436987527164
GO:0007229integrin-mediated signaling pathway0.0369436987527164
GO:0046578regulation of Ras protein signal transduction0.0387425536716064
GO:0051336regulation of hydrolase activity0.0403833373613207
GO:0005085guanyl-nucleotide exchange factor activity0.0410552713598788
GO:0051056regulation of small GTPase mediated signal transduction0.0410552713598788
GO:0043549regulation of kinase activity0.0410552713598788
GO:0043085positive regulation of catalytic activity0.0410552713598788
GO:0051338regulation of transferase activity0.0410552713598788
GO:0007265Ras protein signal transduction0.0428408209211364
GO:0005083small GTPase regulator activity0.0428408209211364



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><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)
MA0003.15.19399
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.12.11217
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
MA0048.10.205696
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.10.0851423
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.955135
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.11.13827
MA0074.11.68683
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.11.42769
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.11.28296
MA0106.10.809991
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
MA0146.10.822925
MA0147.10.378658
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.749235
MA0138.20.861035
MA0002.20.809945
MA0137.21.20517
MA0104.21.52809
MA0047.20.75686
MA0112.20.157681
MA0065.20.158101
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.13.26157
MA0155.10.515751
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.11.01146
MA0160.10.624415
MA0161.10
MA0162.10.245828
MA0163.12.36557
MA0164.10.729558
MA0080.21.15331
MA0018.20.739807
MA0099.20.854449
MA0079.21.7149
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10