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MCL coexpression mm9:1786: Difference between revisions

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{{MCL_coexpression_mm9
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regulation of immature T cell proliferation;0.00870235509430751;12578!GO:0033088;negative regulation of immature T cell proliferation in the thymus;0.00870235509430751;12578!GO:0045736;negative regulation of cyclin-dependent protein kinase activity;0.00870235509430751;12578!GO:0033080;immature T cell proliferation in the thymus;0.00870235509430751;12578!GO:0033079;immature T cell proliferation;0.00870235509430751;12578!GO:0033083;regulation of immature T cell proliferation;0.00870235509430751;12578!GO:0033084;regulation of immature T cell proliferation in the thymus;0.00870235509430751;12578!GO:0048103;somatic stem cell division;0.0114212152241201;12578!GO:0004861;cyclin-dependent protein kinase inhibitor activity;0.0121819620127591;12578!GO:0030889;negative regulation of B cell proliferation;0.0121819620127591;12578!GO:0017145;stem cell division;0.0124584834200535;12578!GO:0000079;regulation of cyclin-dependent protein kinase activity;0.0128837084044577;12578!GO:0050869;negative regulation of B cell activation;0.0128837084044577;12578!GO:0007569;cell aging;0.0141378402212238;12578!GO:0050672;negative regulation of lymphocyte proliferation;0.0176250236905787;12578!GO:0032945;negative regulation of mononuclear cell proliferation;0.0176250236905787;12578!GO:0004860;protein kinase inhibitor activity;0.0176250236905787;12578!GO:0030888;regulation of B cell proliferation;0.0176250236905787;12578!GO:0019210;kinase inhibitor activity;0.0176250236905787;12578!GO:0033077;T cell differentiation in the thymus;0.0181194758271656;12578!GO:0051250;negative regulation of lymphocyte activation;0.0181194758271656;12578!GO:0042100;B cell proliferation;0.0185276097640895;12578!GO:0007568;aging;0.0185276097640895;12578!GO:0006469;negative regulation of protein kinase activity;0.0214136133098367;12578!GO:0033673;negative regulation of kinase activity;0.0214136133098367;12578!GO:0050864;regulation of B cell activation;0.0214136133098367;12578!GO:0051348;negative regulation of transferase activity;0.0214136133098367;12578!GO:0042129;regulation of T cell proliferation;0.0228199003105341;12578!GO:0007050;cell cycle arrest;0.0236048511714399;12578!GO:0043086;negative regulation of catalytic activity;0.0237076441842137;12578!GO:0050670;regulation of lymphocyte proliferation;0.0237076441842137;12578!GO:0032944;regulation of mononuclear cell proliferation;0.0237076441842137;12578!GO:0016072;rRNA metabolic process;0.0237076441842137;12578!GO:0006364;rRNA processing;0.0237076441842137;12578!GO:0042098;T cell proliferation;0.0238980389240199;12578!GO:0030217;T cell differentiation;0.0252074690702271;12578!GO:0019887;protein kinase regulator activity;0.0252074690702271;12578!GO:0050863;regulation of T cell activation;0.0252074690702271;12578!GO:0032943;mononuclear cell proliferation;0.0274339941559054;12578!GO:0019207;kinase regulator activity;0.0274339941559054;12578!GO:0046651;lymphocyte proliferation;0.0274339941559054;12578!GO:0051249;regulation of lymphocyte activation;0.0296991402863356;12578!GO:0042113;B cell activation;0.0296991402863356;12578!GO:0050865;regulation of cell activation;0.0296991402863356;12578!GO:0030098;lymphocyte differentiation;0.0310600292983706;12578!GO:0008544;epidermis development;0.0317024071011824;12578!GO:0007398;ectoderm development;0.0326394406771123;12578!GO:0005730;nucleolus;0.0338524532748576;12578!GO:0045786;negative regulation of progression through cell cycle;0.0351259572419027;12578!GO:0042110;T cell activation;0.0351259572419027;12578!GO:0008285;negative regulation of cell proliferation;0.0351259572419027;12578!GO:0042254;ribosome biogenesis and assembly;0.0356959435470589;12578!GO:0002521;leukocyte differentiation;0.0356959435470589;12578!GO:0045859;regulation of protein kinase activity;0.0356959435470589;12578!GO:0043549;regulation of kinase activity;0.0364217199460299;12578!GO:0051338;regulation of transferase activity;0.0365812994809177;12578!GO:0000074;regulation of progression through cell cycle;0.0473309004601403;12578!GO:0046649;lymphocyte activation;0.0485375539538556;12578!GO:0022613;ribonucleoprotein complex biogenesis and 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|gostat_on_MCL_coexpression=GO:0033087;negative regulation of immature T cell proliferation;0.00870235509430751;12578!GO:0033088;negative regulation of immature T cell proliferation in the thymus;0.00870235509430751;12578!GO:0045736;negative regulation of cyclin-dependent protein kinase activity;0.00870235509430751;12578!GO:0033080;immature T cell proliferation in the thymus;0.00870235509430751;12578!GO:0033079;immature T cell proliferation;0.00870235509430751;12578!GO:0033083;regulation of immature T cell proliferation;0.00870235509430751;12578!GO:0033084;regulation of immature T cell proliferation in the thymus;0.00870235509430751;12578!GO:0048103;somatic stem cell division;0.0114212152241201;12578!GO:0004861;cyclin-dependent protein kinase inhibitor activity;0.0121819620127591;12578!GO:0030889;negative regulation of B cell proliferation;0.0121819620127591;12578!GO:0017145;stem cell division;0.0124584834200535;12578!GO:0000079;regulation of cyclin-dependent protein kinase activity;0.0128837084044577;12578!GO:0050869;negative regulation of B cell activation;0.0128837084044577;12578!GO:0007569;cell aging;0.0141378402212238;12578!GO:0050672;negative regulation of lymphocyte proliferation;0.0176250236905787;12578!GO:0032945;negative regulation of mononuclear cell proliferation;0.0176250236905787;12578!GO:0004860;protein kinase inhibitor activity;0.0176250236905787;12578!GO:0030888;regulation of B cell proliferation;0.0176250236905787;12578!GO:0019210;kinase inhibitor activity;0.0176250236905787;12578!GO:0033077;T cell differentiation in the thymus;0.0181194758271656;12578!GO:0051250;negative regulation of lymphocyte activation;0.0181194758271656;12578!GO:0042100;B cell proliferation;0.0185276097640895;12578!GO:0007568;aging;0.0185276097640895;12578!GO:0006469;negative regulation of protein kinase activity;0.0214136133098367;12578!GO:0033673;negative regulation of kinase activity;0.0214136133098367;12578!GO:0050864;regulation of B cell activation;0.0214136133098367;12578!GO:0051348;negative regulation of transferase activity;0.0214136133098367;12578!GO:0042129;regulation of T cell proliferation;0.0228199003105341;12578!GO:0007050;cell cycle arrest;0.0236048511714399;12578!GO:0043086;negative regulation of catalytic activity;0.0237076441842137;12578!GO:0050670;regulation of lymphocyte proliferation;0.0237076441842137;12578!GO:0032944;regulation of mononuclear cell proliferation;0.0237076441842137;12578!GO:0016072;rRNA metabolic process;0.0237076441842137;12578!GO:0006364;rRNA processing;0.0237076441842137;12578!GO:0042098;T cell proliferation;0.0238980389240199;12578!GO:0030217;T cell differentiation;0.0252074690702271;12578!GO:0019887;protein kinase regulator activity;0.0252074690702271;12578!GO:0050863;regulation of T cell activation;0.0252074690702271;12578!GO:0032943;mononuclear cell proliferation;0.0274339941559054;12578!GO:0019207;kinase regulator activity;0.0274339941559054;12578!GO:0046651;lymphocyte proliferation;0.0274339941559054;12578!GO:0051249;regulation of lymphocyte activation;0.0296991402863356;12578!GO:0042113;B cell activation;0.0296991402863356;12578!GO:0050865;regulation of cell activation;0.0296991402863356;12578!GO:0030098;lymphocyte differentiation;0.0310600292983706;12578!GO:0008544;epidermis development;0.0317024071011824;12578!GO:0007398;ectoderm development;0.0326394406771123;12578!GO:0005730;nucleolus;0.0338524532748576;12578!GO:0045786;negative regulation of progression through cell cycle;0.0351259572419027;12578!GO:0042110;T cell activation;0.0351259572419027;12578!GO:0008285;negative regulation of cell proliferation;0.0351259572419027;12578!GO:0042254;ribosome biogenesis and assembly;0.0356959435470589;12578!GO:0002521;leukocyte differentiation;0.0356959435470589;12578!GO:0045859;regulation of protein kinase activity;0.0356959435470589;12578!GO:0043549;regulation of kinase activity;0.0364217199460299;12578!GO:0051338;regulation of transferase activity;0.0365812994809177;12578!GO:0000074;regulation of progression through cell cycle;0.0473309004601403;12578!GO:0046649;lymphocyte activation;0.0485375539538556;12578!GO:0022613;ribonucleoprotein complex biogenesis and assembly;0.0485375539538556;12578!
}}

Latest revision as of 17:29, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr3:108186901..108186919,+p2@Psrc1
Mm9::chr4:88940410..88940415,-p6@Cdkn2a
Mm9::chr4:88940435..88940449,-p3@Cdkn2a
Mm9::chr4:88940458..88940492,-p1@Cdkn2a
Mm9::chr4:88940512..88940515,-p5@Cdkn2a


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:0033087negative regulation of immature T cell proliferation0.00870235509430751
GO:0033088negative regulation of immature T cell proliferation in the thymus0.00870235509430751
GO:0045736negative regulation of cyclin-dependent protein kinase activity0.00870235509430751
GO:0033080immature T cell proliferation in the thymus0.00870235509430751
GO:0033079immature T cell proliferation0.00870235509430751
GO:0033083regulation of immature T cell proliferation0.00870235509430751
GO:0033084regulation of immature T cell proliferation in the thymus0.00870235509430751
GO:0048103somatic stem cell division0.0114212152241201
GO:0004861cyclin-dependent protein kinase inhibitor activity0.0121819620127591
GO:0030889negative regulation of B cell proliferation0.0121819620127591
GO:0017145stem cell division0.0124584834200535
GO:0000079regulation of cyclin-dependent protein kinase activity0.0128837084044577
GO:0050869negative regulation of B cell activation0.0128837084044577
GO:0007569cell aging0.0141378402212238
GO:0050672negative regulation of lymphocyte proliferation0.0176250236905787
GO:0032945negative regulation of mononuclear cell proliferation0.0176250236905787
GO:0004860protein kinase inhibitor activity0.0176250236905787
GO:0030888regulation of B cell proliferation0.0176250236905787
GO:0019210kinase inhibitor activity0.0176250236905787
GO:0033077T cell differentiation in the thymus0.0181194758271656
GO:0051250negative regulation of lymphocyte activation0.0181194758271656
GO:0042100B cell proliferation0.0185276097640895
GO:0007568aging0.0185276097640895
GO:0006469negative regulation of protein kinase activity0.0214136133098367
GO:0033673negative regulation of kinase activity0.0214136133098367
GO:0050864regulation of B cell activation0.0214136133098367
GO:0051348negative regulation of transferase activity0.0214136133098367
GO:0042129regulation of T cell proliferation0.0228199003105341
GO:0007050cell cycle arrest0.0236048511714399
GO:0043086negative regulation of catalytic activity0.0237076441842137
GO:0050670regulation of lymphocyte proliferation0.0237076441842137
GO:0032944regulation of mononuclear cell proliferation0.0237076441842137
GO:0016072rRNA metabolic process0.0237076441842137
GO:0006364rRNA processing0.0237076441842137
GO:0042098T cell proliferation0.0238980389240199
GO:0030217T cell differentiation0.0252074690702271
GO:0019887protein kinase regulator activity0.0252074690702271
GO:0050863regulation of T cell activation0.0252074690702271
GO:0032943mononuclear cell proliferation0.0274339941559054
GO:0019207kinase regulator activity0.0274339941559054
GO:0046651lymphocyte proliferation0.0274339941559054
GO:0051249regulation of lymphocyte activation0.0296991402863356
GO:0042113B cell activation0.0296991402863356
GO:0050865regulation of cell activation0.0296991402863356
GO:0030098lymphocyte differentiation0.0310600292983706
GO:0008544epidermis development0.0317024071011824
GO:0007398ectoderm development0.0326394406771123
GO:0005730nucleolus0.0338524532748576
GO:0045786negative regulation of progression through cell cycle0.0351259572419027
GO:0042110T cell activation0.0351259572419027
GO:0008285negative regulation of cell proliferation0.0351259572419027
GO:0042254ribosome biogenesis and assembly0.0356959435470589
GO:0002521leukocyte differentiation0.0356959435470589
GO:0045859regulation of protein kinase activity0.0356959435470589
GO:0043549regulation of kinase activity0.0364217199460299
GO:0051338regulation of transferase activity0.0365812994809177
GO:0000074regulation of progression through cell cycle0.0473309004601403
GO:0046649lymphocyte activation0.0485375539538556
GO:0022613ribonucleoprotein complex biogenesis and assembly0.0485375539538556



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>

Cell Type
Ontology termp-valuen
oligodendrocyte precursor cell1.15e-148
autonomic neuron3.13e-149
non-terminally differentiated cell7.87e-1449
migratory neural crest cell9.13e-1410
neuron associated cell9.13e-1410
glial cell (sensu Vertebrata)9.13e-1410
neuron associated cell (sensu Vertebrata)9.13e-1410
glial cell9.13e-1410
glioblast9.13e-1410
glioblast (sensu Vertebrata)9.13e-1410
animal cell9.27e-14115
eukaryotic cell9.27e-14115
somatic cell3.79e-13118
oligodendrocyte2.94e-116
macroglial cell2.94e-116
astrocyte2.94e-116
embryonic cell1.50e-1070
neural cell5.51e-0943
ectodermal cell1.13e-0844
neurectodermal cell1.13e-0844
muscle precursor cell4.90e-086
contractile cell4.90e-086
muscle cell4.90e-086
myoblast4.90e-086
stem cell3.92e-0797
smooth muscle cell8.02e-073
vascular associated smooth muscle cell8.02e-073
aortic smooth muscle cell8.02e-073
smooth muscle myoblast8.02e-073
mesodermal cell8.58e-077


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)
MA0003.12.77888
MA0004.10.603793
MA0006.11.89254
MA0007.10.587678
MA0009.11.06266
MA0014.10.736185
MA0017.10.449113
MA0019.10.874061
MA0024.12.32185
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
MA0048.11.12075
MA0050.10.645342
MA0051.10.767098
MA0052.11.08379
MA0055.11.01283
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.12.45705
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.0481612
MA0074.11.68683
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.148348
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
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.949408
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
MA0145.11.48363
MA0146.10.0604336
MA0147.11.75115
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.22.26967
MA0138.20.861035
MA0002.20.299191
MA0137.21.20517
MA0104.22.32496
MA0047.20.75686
MA0112.20.927461
MA0065.20.477991
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.11.11105
MA0155.15.58055
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.13.09272
MA0163.13.65448
MA0164.10.729558
MA0080.20.455167
MA0018.20.739807
MA0099.20.854449
MA0079.23.01303
MA0102.21.79669
MA0258.10.346619
MA0259.11.71005
MA0442.10
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