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MCL coexpression mm9:783: Difference between revisions

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{{MCL_coexpression_mm9
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protein nuclear translocation;0.0207038874717054;20742!GO:0007182;common-partner SMAD protein phosphorylation;0.0207038874717054;20742!GO:0000060;protein import into nucleus, translocation;0.0207038874717054;20742!GO:0051016;barbed-end actin filament capping;0.0207038874717054;20742!GO:0051693;actin filament capping;0.0207038874717054;20742!GO:0030835;negative regulation of actin filament depolymerization;0.0207038874717054;20742!GO:0030834;regulation of actin filament depolymerization;0.0207038874717054;20742!GO:0030042;actin filament depolymerization;0.0207038874717054;20742!GO:0008064;regulation of actin polymerization and/or depolymerization;0.0207038874717054;20742!GO:0051261;protein depolymerization;0.0207038874717054;20742!GO:0032535;regulation of cellular component size;0.0207038874717054;20742!GO:0032956;regulation of actin cytoskeleton organization and biogenesis;0.0207038874717054;20742!GO:0030832;regulation of actin filament length;0.0207038874717054;20742!GO:0051493;regulation of cytoskeleton organization and biogenesis;0.0207038874717054;20742!GO:0033043;regulation of organelle organization and biogenesis;0.0207038874717054;20742!GO:0051129;negative regulation of cellular component organization and biogenesis;0.0207038874717054;20742!GO:0008154;actin polymerization and/or depolymerization;0.0229209482482917;20742!GO:0007179;transforming growth factor beta receptor signaling pathway;0.0248906003629147;20742!GO:0051128;regulation of cellular component organization and biogenesis;0.0264286242313037;20742!GO:0006606;protein import into nucleus;0.0264286242313037;20742!GO:0051170;nuclear import;0.0264286242313037;20742!GO:0017038;protein import;0.0283199754224538;20742!GO:0051248;negative regulation of protein metabolic process;0.028778554884952;20742!GO:0007178;transmembrane receptor protein serine/threonine kinase signaling pathway;0.0320311569592509;20742!GO:0006913;nucleocytoplasmic transport;0.034793604889888;20742!GO:0051169;nuclear transport;0.034793604889888;20742!GO:0005516;calmodulin 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|gostat_on_MCL_coexpression=GO:0007184;SMAD protein nuclear translocation;0.0207038874717054;20742!GO:0007182;common-partner SMAD protein phosphorylation;0.0207038874717054;20742!GO:0000060;protein import into nucleus, translocation;0.0207038874717054;20742!GO:0051016;barbed-end actin filament capping;0.0207038874717054;20742!GO:0051693;actin filament capping;0.0207038874717054;20742!GO:0030835;negative regulation of actin filament depolymerization;0.0207038874717054;20742!GO:0030834;regulation of actin filament depolymerization;0.0207038874717054;20742!GO:0030042;actin filament depolymerization;0.0207038874717054;20742!GO:0008064;regulation of actin polymerization and/or depolymerization;0.0207038874717054;20742!GO:0051261;protein depolymerization;0.0207038874717054;20742!GO:0032535;regulation of cellular component size;0.0207038874717054;20742!GO:0032956;regulation of actin cytoskeleton organization and biogenesis;0.0207038874717054;20742!GO:0030832;regulation of actin filament length;0.0207038874717054;20742!GO:0051493;regulation of cytoskeleton organization and biogenesis;0.0207038874717054;20742!GO:0033043;regulation of organelle organization and biogenesis;0.0207038874717054;20742!GO:0051129;negative regulation of cellular component organization and biogenesis;0.0207038874717054;20742!GO:0008154;actin polymerization and/or depolymerization;0.0229209482482917;20742!GO:0007179;transforming growth factor beta receptor signaling pathway;0.0248906003629147;20742!GO:0051128;regulation of cellular component organization and biogenesis;0.0264286242313037;20742!GO:0006606;protein import into nucleus;0.0264286242313037;20742!GO:0051170;nuclear import;0.0264286242313037;20742!GO:0017038;protein import;0.0283199754224538;20742!GO:0051248;negative regulation of protein metabolic process;0.028778554884952;20742!GO:0007178;transmembrane receptor protein serine/threonine kinase signaling pathway;0.0320311569592509;20742!GO:0006913;nucleocytoplasmic transport;0.034793604889888;20742!GO:0051169;nuclear transport;0.034793604889888;20742!GO:0005516;calmodulin binding;0.0385338876605893;20742!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007100!5.69e-11!18;UBERON:0000948!5.69e-11!18;UBERON:0005498!5.69e-11!18;UBERON:0004140!5.69e-11!18;UBERON:0009881!5.69e-11!18;UBERON:0004141!5.69e-11!18;UBERON:0003084!5.69e-11!18;UBERON:0007005!5.69e-11!18;UBERON:0004139!5.69e-11!18;UBERON:0004291!5.69e-11!18;UBERON:0004535!8.53e-10!23;UBERON:0001009!8.53e-10!23;UBERON:0002048!8.39e-09!14;UBERON:0000117!8.39e-09!14;UBERON:0000171!8.39e-09!14;UBERON:0000170!8.39e-09!14;UBERON:0005597!8.39e-09!14;UBERON:0000118!8.39e-09!14;UBERON:0004872!1.16e-08!33;UBERON:0003103!2.39e-08!43;UBERON:0005153!2.59e-07!17
}}

Latest revision as of 15:53, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:30168137..30168162,-p1@Spnb2
Mm9::chr14:46149225..46149296,-p3@Fermt2
Mm9::chr16:38712941..38712952,-p9@Arhgap31
Mm9::chr16:38712955..38712973,-p1@Arhgap31
Mm9::chr16:38712975..38713016,-p2@Arhgap31
Mm9::chr16:38713037..38713050,-p6@Arhgap31
Mm9::chr16:38713060..38713091,-p5@Arhgap31
Mm9::chr8:37675842..37675846,-p@chr8:37675842..37675846
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Mm9::chr8:49075715..49075754,-p1@Wwc2


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:0007184SMAD protein nuclear translocation0.0207038874717054
GO:0007182common-partner SMAD protein phosphorylation0.0207038874717054
GO:0000060protein import into nucleus, translocation0.0207038874717054
GO:0051016barbed-end actin filament capping0.0207038874717054
GO:0051693actin filament capping0.0207038874717054
GO:0030835negative regulation of actin filament depolymerization0.0207038874717054
GO:0030834regulation of actin filament depolymerization0.0207038874717054
GO:0030042actin filament depolymerization0.0207038874717054
GO:0008064regulation of actin polymerization and/or depolymerization0.0207038874717054
GO:0051261protein depolymerization0.0207038874717054
GO:0032535regulation of cellular component size0.0207038874717054
GO:0032956regulation of actin cytoskeleton organization and biogenesis0.0207038874717054
GO:0030832regulation of actin filament length0.0207038874717054
GO:0051493regulation of cytoskeleton organization and biogenesis0.0207038874717054
GO:0033043regulation of organelle organization and biogenesis0.0207038874717054
GO:0051129negative regulation of cellular component organization and biogenesis0.0207038874717054
GO:0008154actin polymerization and/or depolymerization0.0229209482482917
GO:0007179transforming growth factor beta receptor signaling pathway0.0248906003629147
GO:0051128regulation of cellular component organization and biogenesis0.0264286242313037
GO:0006606protein import into nucleus0.0264286242313037
GO:0051170nuclear import0.0264286242313037
GO:0017038protein import0.0283199754224538
GO:0051248negative regulation of protein metabolic process0.028778554884952
GO:0007178transmembrane receptor protein serine/threonine kinase signaling pathway0.0320311569592509
GO:0006913nucleocytoplasmic transport0.034793604889888
GO:0051169nuclear transport0.034793604889888
GO:0005516calmodulin binding0.0385338876605893



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
primary circulatory organ5.69e-1118
heart5.69e-1118
primitive heart tube5.69e-1118
primary heart field5.69e-1118
anterior lateral plate mesoderm5.69e-1118
heart tube5.69e-1118
heart primordium5.69e-1118
cardiac mesoderm5.69e-1118
cardiogenic plate5.69e-1118
heart rudiment5.69e-1118
cardiovascular system8.53e-1023
circulatory system8.53e-1023
lung8.39e-0914
respiratory tube8.39e-0914
respiration organ8.39e-0914
pair of lungs8.39e-0914
lung primordium8.39e-0914
lung bud8.39e-0914
splanchnic layer of lateral plate mesoderm1.16e-0833
compound organ2.39e-0843
epithelial bud2.59e-0717


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)
MA0003.16.75707
MA0004.10.394951
MA0006.10.238555
MA0007.10.38073
MA0009.10.82278
MA0014.15.965
MA0017.10.26239
MA0019.10.642876
MA0024.10.779446
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.12.27384
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.11.47862
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.10.221677
MA0056.10
MA0057.10.934348
MA0058.10.305206
MA0059.10.316585
MA0060.10.169058
MA0061.10.194456
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.14.68424
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.16.90453
MA0074.10.488775
MA0076.10.279739
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.10.413524
MA0089.10
MA0090.10.951436
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.10.477594
MA0101.10.324888
MA0103.10.272167
MA0105.13.03754
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.10.19245
MA0115.10.921497
MA0116.10.238371
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.12.61143
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.11.26662
MA0139.10.441109
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.195095
MA0145.10.442138
MA0146.11.09957
MA0147.10.205697
MA0148.10.410398
MA0149.10.330018
MA0062.20.365726
MA0035.20.482026
MA0039.23.616
MA0138.20.630612
MA0002.20.447007
MA0137.20.287486
MA0104.20.157347
MA0047.20.533516
MA0112.20.771888
MA0065.20.200864
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.10.971406
MA0154.10.0809407
MA0155.10.845235
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.11.61761
MA0163.14.04027
MA0164.10.508398
MA0080.22.90528
MA0018.20.51781
MA0099.20.624421
MA0079.25.31455
MA0102.21.5442
MA0258.10.180934
MA0259.11.70624
MA0442.10
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