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MCL coexpression mm9:2592: Difference between revisions

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{{MCL_coexpression_mm9
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regulation of microtubule polymerization;0.00276666849285049;12576!GO:0031112;positive regulation of microtubule polymerization or depolymerization;0.00276666849285049;12576!GO:0031113;regulation of microtubule polymerization;0.00368889132380065;12576!GO:0046785;microtubule polymerization;0.00415000273927573;12576!GO:0045736;negative regulation of cyclin-dependent protein kinase activity;0.00442666958856079;12576!GO:0051130;positive regulation of cellular component organization and biogenesis;0.00474286027345798;12576!GO:0050680;negative regulation of epithelial cell proliferation;0.00474286027345798;12576!GO:0004861;cyclin-dependent protein kinase inhibitor activity;0.00553333698570098;12576!GO:0000079;regulation of cyclin-dependent protein kinase activity;0.00676296742696787;12576!GO:0031110;regulation of microtubule polymerization or depolymerization;0.00704242889089216;12576!GO:0031109;microtubule polymerization or depolymerization;0.00704242889089216;12576!GO:0051271;negative regulation of cell motility;0.00790476712242997;12576!GO:0040013;negative regulation of locomotion;0.00790476712242997;12576!GO:0004860;protein kinase inhibitor activity;0.00790476712242997;12576!GO:0019210;kinase inhibitor activity;0.00811556091236144;12576!GO:0050678;regulation of epithelial cell proliferation;0.00830000547855147;12576!GO:0050673;epithelial cell proliferation;0.0100902027386312;12576!GO:0006469;negative regulation of protein kinase activity;0.010276197259159;12576!GO:0033673;negative regulation of kinase activity;0.010276197259159;12576!GO:0051348;negative regulation of transferase activity;0.010276197259159;12576!GO:0051258;protein polymerization;0.010276197259159;12576!GO:0007050;cell cycle arrest;0.0113072538403455;12576!GO:0043086;negative regulation of catalytic activity;0.0113072538403455;12576!GO:0051128;regulation of cellular component organization and biogenesis;0.0124500082178272;12576!GO:0051270;regulation of cell motility;0.012647627395888;12576!GO:0019887;protein kinase regulator activity;0.012647627395888;12576!GO:0040012;regulation of locomotion;0.012647627395888;12576!GO:0000226;microtubule cytoskeleton organization and biogenesis;0.012647627395888;12576!GO:0048839;inner ear development;0.0133563306551403;12576!GO:0019207;kinase regulator activity;0.0135656003520411;12576!GO:0043583;ear development;0.0135656003520411;12576!GO:0007605;sensory perception of sound;0.0159083438338903;12576!GO:0050954;sensory perception of mechanical stimulus;0.0162646572003938;12576!GO:0045786;negative regulation of progression through cell cycle;0.0186552504089347;12576!GO:0008285;negative regulation of cell proliferation;0.0186552504089347;12576!GO:0045859;regulation of protein kinase activity;0.0195203832551118;12576!GO:0043549;regulation of kinase activity;0.0196579077123588;12576!GO:0051338;regulation of transferase activity;0.0196579077123588;12576!GO:0006813;potassium ion transport;0.0217077066362115;12576!GO:0007017;microtubule-based process;0.0234508091298756;12576!GO:0008284;positive regulation of cell proliferation;0.0234508091298756;12576!GO:0000074;regulation of progression through cell cycle;0.0234508091298756;12576!GO:0007423;sensory organ development;0.0239348995195438;12576!GO:0004857;enzyme inhibitor activity;0.0259060777057819;12576!GO:0050790;regulation of catalytic activity;0.0328311327818258;12576!GO:0015672;monovalent inorganic cation transport;0.0344029212589235;12576!GO:0065009;regulation of a molecular function;0.0358560236673424;12576!GO:0042127;regulation of cell proliferation;0.0358560236673424;12576!GO:0051674;localization of cell;0.0358560236673424;12576!GO:0006928;cell motility;0.0358560236673424;12576!GO:0005829;cytosol;0.036563422827083;12576!GO:0051726;regulation of cell cycle;0.0372436143268335;12576!GO:0030001;metal ion transport;0.0406126054233525;12576!GO:0007010;cytoskeleton organization and biogenesis;0.0456500301320331;12576!GO:0006812;cation transport;0.0456500301320331;12576!GO:0008283;cell 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|gostat_on_MCL_coexpression=GO:0031116;positive regulation of microtubule polymerization;0.00276666849285049;12576!GO:0031112;positive regulation of microtubule polymerization or depolymerization;0.00276666849285049;12576!GO:0031113;regulation of microtubule polymerization;0.00368889132380065;12576!GO:0046785;microtubule polymerization;0.00415000273927573;12576!GO:0045736;negative regulation of cyclin-dependent protein kinase activity;0.00442666958856079;12576!GO:0051130;positive regulation of cellular component organization and biogenesis;0.00474286027345798;12576!GO:0050680;negative regulation of epithelial cell proliferation;0.00474286027345798;12576!GO:0004861;cyclin-dependent protein kinase inhibitor activity;0.00553333698570098;12576!GO:0000079;regulation of cyclin-dependent protein kinase activity;0.00676296742696787;12576!GO:0031110;regulation of microtubule polymerization or depolymerization;0.00704242889089216;12576!GO:0031109;microtubule polymerization or depolymerization;0.00704242889089216;12576!GO:0051271;negative regulation of cell motility;0.00790476712242997;12576!GO:0040013;negative regulation of locomotion;0.00790476712242997;12576!GO:0004860;protein kinase inhibitor activity;0.00790476712242997;12576!GO:0019210;kinase inhibitor activity;0.00811556091236144;12576!GO:0050678;regulation of epithelial cell proliferation;0.00830000547855147;12576!GO:0050673;epithelial cell proliferation;0.0100902027386312;12576!GO:0006469;negative regulation of protein kinase activity;0.010276197259159;12576!GO:0033673;negative regulation of kinase activity;0.010276197259159;12576!GO:0051348;negative regulation of transferase activity;0.010276197259159;12576!GO:0051258;protein polymerization;0.010276197259159;12576!GO:0007050;cell cycle arrest;0.0113072538403455;12576!GO:0043086;negative regulation of catalytic activity;0.0113072538403455;12576!GO:0051128;regulation of cellular component organization and biogenesis;0.0124500082178272;12576!GO:0051270;regulation of cell motility;0.012647627395888;12576!GO:0019887;protein kinase regulator activity;0.012647627395888;12576!GO:0040012;regulation of locomotion;0.012647627395888;12576!GO:0000226;microtubule cytoskeleton organization and biogenesis;0.012647627395888;12576!GO:0048839;inner ear development;0.0133563306551403;12576!GO:0019207;kinase regulator activity;0.0135656003520411;12576!GO:0043583;ear development;0.0135656003520411;12576!GO:0007605;sensory perception of sound;0.0159083438338903;12576!GO:0050954;sensory perception of mechanical stimulus;0.0162646572003938;12576!GO:0045786;negative regulation of progression through cell cycle;0.0186552504089347;12576!GO:0008285;negative regulation of cell proliferation;0.0186552504089347;12576!GO:0045859;regulation of protein kinase activity;0.0195203832551118;12576!GO:0043549;regulation of kinase activity;0.0196579077123588;12576!GO:0051338;regulation of transferase activity;0.0196579077123588;12576!GO:0006813;potassium ion transport;0.0217077066362115;12576!GO:0007017;microtubule-based process;0.0234508091298756;12576!GO:0008284;positive regulation of cell proliferation;0.0234508091298756;12576!GO:0000074;regulation of progression through cell cycle;0.0234508091298756;12576!GO:0007423;sensory organ development;0.0239348995195438;12576!GO:0004857;enzyme inhibitor activity;0.0259060777057819;12576!GO:0050790;regulation of catalytic activity;0.0328311327818258;12576!GO:0015672;monovalent inorganic cation transport;0.0344029212589235;12576!GO:0065009;regulation of a molecular function;0.0358560236673424;12576!GO:0042127;regulation of cell proliferation;0.0358560236673424;12576!GO:0051674;localization of cell;0.0358560236673424;12576!GO:0006928;cell motility;0.0358560236673424;12576!GO:0005829;cytosol;0.036563422827083;12576!GO:0051726;regulation of cell cycle;0.0372436143268335;12576!GO:0030001;metal ion transport;0.0406126054233525;12576!GO:0007010;cytoskeleton organization and biogenesis;0.0456500301320331;12576!GO:0006812;cation transport;0.0456500301320331;12576!GO:0008283;cell proliferation;0.0456500301320331;12576!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002204!3.11e-09!32
|tfbs_overrepresentation_for_novel_motifs=1.77936,1.07244,0.722405,0.801166,0.587814,0.81763,0.919454,0.467321,0.479531,0.235304,2.0216,0.906098,1.18012,0.933025,0.608226,0,1.14208,0.578045,0.448066,0.328717,0.679146,0.275782,0.932027,0.585919,0.731217,2.21138,0.437236,0.841386,0.64294,0.380786,0.825437,1.24901,0.575271,0.411696,0.608816,1.40558,0.563758,0.902078,0.536514,0.50014,0.582863,0.831295,0.261619,0.610669,0.474221,0.788421,1.05665,1.99832,0.235354,0.646474,1.12346,0.99279,0.971403,1.3966,1.41464,0.940919,0.657156,0.891887,0.425455,0.938668,1.22795,1.00308,0.494668,1.11142,0.953187,1.15459,1.55483,1.90983,1.22303,1.7608,0.700291,1.19585,0.284975,1.44925,0.416814,0.402065,0.411601,1.04436,1.20986,0.684144,0.476502,1.16055,1.00151,0.459035,1.32978,0.181575,0.195254,1.75916,1.06194,2.07346,1.62608,1.33496,1.26245,0.595071,0.531443,0.509215,0.464141,1.26539,1.05692,1.65883,0.563856,1.24872,1.37854,1.12409,1.12297,0.830796,1.18646,0.854628,2.77583,3.98717,0.744607,1.38039,1.63982,0.876299,1.63327,0.580657,0.609576,0.805461,1.14346,0.559153,1.45481,1.08896,0.965352,1.04338,1.68841,1.21376,0.928483,1.25534,1.55328,0.598722,1.36093,0.792832,1.52297,0.955954,1.65529,0.751419,0.762499,0.832891,1.60513,2.44352,2.04137,1.55966,0.978551,1.26,1.11604,3.22284,1.06002,2.40374,0.765221,0.589976,1.77018,0.260379,1.39822,3.26683,0.954936,1.48249,0.993889,1.50904,0.749933,0.762177,1.61484,1.32889,1.21423,0.741984,1.11251,0.94678,0.562367,0.904334,0.135528
|tfbs_overrepresentation_jaspar=MA0003.1;0.245953,MA0004.1;0.801718,MA0006.1;0.60285,MA0007.1;0.784593,MA0009.1;1.27673,MA0014.1;0.416365,MA0017.1;0.635031,MA0019.1;1.08369,MA0024.1;1.23079,MA0025.1;1.51835,MA0027.1;2.9431,MA0028.1;0.61552,MA0029.1;1.20789,MA0030.1;1.21482,MA0031.1;1.17722,MA0038.1;0.963265,MA0040.1;1.28983,MA0041.1;0.714279,MA0042.1;0.69885,MA0043.1;1.3775,MA0046.1;1.31428,MA0048.1;0.353763,MA0050.1;0.845669,MA0051.1;0.973068,MA0052.1;1.29825,MA0055.1;0.557057,MA0056.1;0,MA0057.1;3.35395,MA0058.1;0.690848,MA0059.1;0.705317,MA0060.1;0.502699,MA0061.1;1.33581,MA0063.1;0,MA0066.1;0.951196,MA0067.1;1.63197,MA0068.1;2.46203,MA0069.1;1.29861,MA0070.1;1.28847,MA0071.1;0.844726,MA0072.1;1.2796,MA0073.1;0.121346,MA0074.1;0.911576,MA0076.1;0.657929,MA0077.1;1.2569,MA0078.1;1.0091,MA0081.1;0.732313,MA0083.1;1.37668,MA0084.1;1.96428,MA0087.1;1.33189,MA0088.1;0.766354,MA0089.1;0,MA0090.1;0.762482,MA0091.1;0.816659,MA0092.1;0.762845,MA0093.1;0.62555,MA0095.1;0,MA0098.1;0,MA0100.1;0.89873,MA0101.1;0.71579,MA0103.1;0.647985,MA0105.1;0.405648,MA0106.1;1.01755,MA0107.1;0.640607,MA0108.2;1.10817,MA0109.1;0,MA0111.1;0.778753,MA0113.1;0.986839,MA0114.1;0.537669,MA0115.1;1.38041,MA0116.1;0.602598,MA0117.1;1.34691,MA0119.1;0.716476,MA0122.1;1.36752,MA0124.1;1.57762,MA0125.1;1.5017,MA0130.1;0,MA0131.1;1.07881,MA0132.1;0,MA0133.1;0,MA0135.1;1.4152,MA0136.1;0.933582,MA0139.1;0.462282,MA0140.1;0.898603,MA0141.1;0.671467,MA0142.1;1.16183,MA0143.1;1.00467,MA0144.1;0.541532,MA0145.1;0.292366,MA0146.1;0.151124,MA0147.1;0.556853,MA0148.1;0.820161,MA0149.1;0.722227,MA0062.2;0.412742,MA0035.2;0.903829,MA0039.2;0.71803,MA0138.2;1.07027,MA0002.2;0.466067,MA0137.2;0.668025,MA0104.2;0.48458,MA0047.2;0.962424,MA0112.2;0.29236,MA0065.2;0.79573,MA0150.1;0.784464,MA0151.1;0,MA0152.1;0.962542,MA0153.1;1.43238,MA0154.1;0.35067,MA0155.1;0.312898,MA0156.1;0.656895,MA0157.1;1.12772,MA0158.1;0,MA0159.1;0.569393,MA0160.1;0.823568,MA0161.1;0,MA0162.1;0.166722,MA0163.1;0.477233,MA0164.1;0.933981,MA0080.2;0.64167,MA0018.2;0.944669,MA0099.2;1.06348,MA0079.2;1.4764,MA0102.2;2.01714,MA0258.1;0.520639,MA0259.1;0.543506,MA0442.1;0
}}

Latest revision as of 18:46, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:84039628..84039649,+p1@Tcp11l2
Mm9::chr6:134870669..134870693,+p3@Cdkn1b
Mm9::chr6:134870706..134870722,+p5@Cdkn1b


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:0031116positive regulation of microtubule polymerization0.00276666849285049
GO:0031112positive regulation of microtubule polymerization or depolymerization0.00276666849285049
GO:0031113regulation of microtubule polymerization0.00368889132380065
GO:0046785microtubule polymerization0.00415000273927573
GO:0045736negative regulation of cyclin-dependent protein kinase activity0.00442666958856079
GO:0051130positive regulation of cellular component organization and biogenesis0.00474286027345798
GO:0050680negative regulation of epithelial cell proliferation0.00474286027345798
GO:0004861cyclin-dependent protein kinase inhibitor activity0.00553333698570098
GO:0000079regulation of cyclin-dependent protein kinase activity0.00676296742696787
GO:0031110regulation of microtubule polymerization or depolymerization0.00704242889089216
GO:0031109microtubule polymerization or depolymerization0.00704242889089216
GO:0051271negative regulation of cell motility0.00790476712242997
GO:0040013negative regulation of locomotion0.00790476712242997
GO:0004860protein kinase inhibitor activity0.00790476712242997
GO:0019210kinase inhibitor activity0.00811556091236144
GO:0050678regulation of epithelial cell proliferation0.00830000547855147
GO:0050673epithelial cell proliferation0.0100902027386312
GO:0006469negative regulation of protein kinase activity0.010276197259159
GO:0033673negative regulation of kinase activity0.010276197259159
GO:0051348negative regulation of transferase activity0.010276197259159
GO:0051258protein polymerization0.010276197259159
GO:0007050cell cycle arrest0.0113072538403455
GO:0043086negative regulation of catalytic activity0.0113072538403455
GO:0051128regulation of cellular component organization and biogenesis0.0124500082178272
GO:0051270regulation of cell motility0.012647627395888
GO:0019887protein kinase regulator activity0.012647627395888
GO:0040012regulation of locomotion0.012647627395888
GO:0000226microtubule cytoskeleton organization and biogenesis0.012647627395888
GO:0048839inner ear development0.0133563306551403
GO:0019207kinase regulator activity0.0135656003520411
GO:0043583ear development0.0135656003520411
GO:0007605sensory perception of sound0.0159083438338903
GO:0050954sensory perception of mechanical stimulus0.0162646572003938
GO:0045786negative regulation of progression through cell cycle0.0186552504089347
GO:0008285negative regulation of cell proliferation0.0186552504089347
GO:0045859regulation of protein kinase activity0.0195203832551118
GO:0043549regulation of kinase activity0.0196579077123588
GO:0051338regulation of transferase activity0.0196579077123588
GO:0006813potassium ion transport0.0217077066362115
GO:0007017microtubule-based process0.0234508091298756
GO:0008284positive regulation of cell proliferation0.0234508091298756
GO:0000074regulation of progression through cell cycle0.0234508091298756
GO:0007423sensory organ development0.0239348995195438
GO:0004857enzyme inhibitor activity0.0259060777057819
GO:0050790regulation of catalytic activity0.0328311327818258
GO:0015672monovalent inorganic cation transport0.0344029212589235
GO:0065009regulation of a molecular function0.0358560236673424
GO:0042127regulation of cell proliferation0.0358560236673424
GO:0051674localization of cell0.0358560236673424
GO:0006928cell motility0.0358560236673424
GO:0005829cytosol0.036563422827083
GO:0051726regulation of cell cycle0.0372436143268335
GO:0030001metal ion transport0.0406126054233525
GO:0007010cytoskeleton organization and biogenesis0.0456500301320331
GO:0006812cation transport0.0456500301320331
GO:0008283cell proliferation0.0456500301320331



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
musculoskeletal system3.11e-0932


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)
MA0003.10.245953
MA0004.10.801718
MA0006.10.60285
MA0007.10.784593
MA0009.11.27673
MA0014.10.416365
MA0017.10.635031
MA0019.11.08369
MA0024.11.23079
MA0025.11.51835
MA0027.12.9431
MA0028.10.61552
MA0029.11.20789
MA0030.11.21482
MA0031.11.17722
MA0038.10.963265
MA0040.11.28983
MA0041.10.714279
MA0042.10.69885
MA0043.11.3775
MA0046.11.31428
MA0048.10.353763
MA0050.10.845669
MA0051.10.973068
MA0052.11.29825
MA0055.10.557057
MA0056.10
MA0057.13.35395
MA0058.10.690848
MA0059.10.705317
MA0060.10.502699
MA0061.11.33581
MA0063.10
MA0066.10.951196
MA0067.11.63197
MA0068.12.46203
MA0069.11.29861
MA0070.11.28847
MA0071.10.844726
MA0072.11.2796
MA0073.10.121346
MA0074.10.911576
MA0076.10.657929
MA0077.11.2569
MA0078.11.0091
MA0081.10.732313
MA0083.11.37668
MA0084.11.96428
MA0087.11.33189
MA0088.10.766354
MA0089.10
MA0090.10.762482
MA0091.10.816659
MA0092.10.762845
MA0093.10.62555
MA0095.10
MA0098.10
MA0100.10.89873
MA0101.10.71579
MA0103.10.647985
MA0105.10.405648
MA0106.11.01755
MA0107.10.640607
MA0108.21.10817
MA0109.10
MA0111.10.778753
MA0113.10.986839
MA0114.10.537669
MA0115.11.38041
MA0116.10.602598
MA0117.11.34691
MA0119.10.716476
MA0122.11.36752
MA0124.11.57762
MA0125.11.5017
MA0130.10
MA0131.11.07881
MA0132.10
MA0133.10
MA0135.11.4152
MA0136.10.933582
MA0139.10.462282
MA0140.10.898603
MA0141.10.671467
MA0142.11.16183
MA0143.11.00467
MA0144.10.541532
MA0145.10.292366
MA0146.10.151124
MA0147.10.556853
MA0148.10.820161
MA0149.10.722227
MA0062.20.412742
MA0035.20.903829
MA0039.20.71803
MA0138.21.07027
MA0002.20.466067
MA0137.20.668025
MA0104.20.48458
MA0047.20.962424
MA0112.20.29236
MA0065.20.79573
MA0150.10.784464
MA0151.10
MA0152.10.962542
MA0153.11.43238
MA0154.10.35067
MA0155.10.312898
MA0156.10.656895
MA0157.11.12772
MA0158.10
MA0159.10.569393
MA0160.10.823568
MA0161.10
MA0162.10.166722
MA0163.10.477233
MA0164.10.933981
MA0080.20.64167
MA0018.20.944669
MA0099.21.06348
MA0079.21.4764
MA0102.22.01714
MA0258.10.520639
MA0259.10.543506
MA0442.10
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