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MCL coexpression mm9:1122: Difference between revisions

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{{MCL_coexpression_mm9
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regulation of apoptosis;0.0245418935033708;12421,218397!GO:0043069;negative regulation of programmed cell death;0.0245418935033708;12421,218397!GO:0016926;protein desumoylation;0.0245418935033708;75826!GO:0045793;positive regulation of cell size;0.0404766219854952;12421!GO:0043687;post-translational protein modification;0.0404766219854952;12421,14897,75826!GO:0006464;protein modification process;0.045608620385925;12421,14897,75826!GO:0043412;biopolymer modification;0.045608620385925;12421,14897,75826!GO:0042981;regulation of apoptosis;0.045608620385925;12421,218397!GO:0043067;regulation of programmed cell death;0.045608620385925;12421,218397!GO:0006512;ubiquitin cycle;0.045608620385925;14897,75826!GO:0009887;organ morphogenesis;0.045608620385925;12421,218397!GO:0001889;liver development;0.045608620385925;12421!GO:0043524;negative regulation of neuron apoptosis;0.045608620385925;218397!GO:0001934;positive regulation of protein amino acid phosphorylation;0.045608620385925;12421!GO:0033240;positive regulation of amine metabolic process;0.045608620385925;12421!GO:0045764;positive regulation of amino acid metabolic process;0.045608620385925;12421!GO:0006915;apoptosis;0.045608620385925;12421,218397!GO:0001570;vasculogenesis;0.045608620385925;218397!GO:0012501;programmed cell death;0.045608620385925;12421,218397!GO:0008219;cell death;0.045608620385925;12421,218397!GO:0016265;death;0.045608620385925;12421,218397!GO:0001726;ruffle;0.045608620385925;218397!GO:0043523;regulation of neuron apoptosis;0.045608620385925;218397!GO:0051402;neuron apoptosis;0.045608620385925;218397!GO:0007254;JNK cascade;0.045608620385925;12421!GO:0031098;stress-activated protein kinase signaling pathway;0.045608620385925;12421!GO:0051028;mRNA transport;0.045608620385925;75826!GO:0044267;cellular protein metabolic process;0.045608620385925;12421,14897,75826!GO:0044260;cellular macromolecule metabolic process;0.045608620385925;12421,14897,75826!GO:0050658;RNA transport;0.045608620385925;75826!GO:0051236;establishment of RNA localization;0.045608620385925;75826!GO:0050657;nucleic acid transport;0.045608620385925;75826!GO:0006403;RNA localization;0.045608620385925;75826!GO:0005643;nuclear pore;0.045608620385925;75826!GO:0048523;negative regulation of cellular process;0.045608620385925;12421,218397!GO:0033238;regulation of amine metabolic process;0.045608620385925;12421!GO:0001932;regulation of protein amino acid phosphorylation;0.045608620385925;12421!GO:0006521;regulation of amino acid metabolic process;0.045608620385925;12421!GO:0019538;protein metabolic process;0.045608620385925;12421,14897,75826!GO:0065002;intracellular protein transport across a membrane;0.045608620385925;75826!GO:0015931;nucleobase, nucleoside, nucleotide and nucleic acid transport;0.045608620385925;75826!GO:0042325;regulation of phosphorylation;0.045608620385925;12421!GO:0051174;regulation of phosphorus 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|gostat_on_MCL_coexpression=GO:0043066;negative regulation of apoptosis;0.0245418935033708;12421,218397!GO:0043069;negative regulation of programmed cell death;0.0245418935033708;12421,218397!GO:0016926;protein desumoylation;0.0245418935033708;75826!GO:0045793;positive regulation of cell size;0.0404766219854952;12421!GO:0043687;post-translational protein modification;0.0404766219854952;12421,14897,75826!GO:0006464;protein modification process;0.045608620385925;12421,14897,75826!GO:0043412;biopolymer modification;0.045608620385925;12421,14897,75826!GO:0042981;regulation of apoptosis;0.045608620385925;12421,218397!GO:0043067;regulation of programmed cell death;0.045608620385925;12421,218397!GO:0006512;ubiquitin cycle;0.045608620385925;14897,75826!GO:0009887;organ morphogenesis;0.045608620385925;12421,218397!GO:0001889;liver development;0.045608620385925;12421!GO:0043524;negative regulation of neuron apoptosis;0.045608620385925;218397!GO:0001934;positive regulation of protein amino acid phosphorylation;0.045608620385925;12421!GO:0033240;positive regulation of amine metabolic process;0.045608620385925;12421!GO:0045764;positive regulation of amino acid metabolic process;0.045608620385925;12421!GO:0006915;apoptosis;0.045608620385925;12421,218397!GO:0001570;vasculogenesis;0.045608620385925;218397!GO:0012501;programmed cell death;0.045608620385925;12421,218397!GO:0008219;cell death;0.045608620385925;12421,218397!GO:0016265;death;0.045608620385925;12421,218397!GO:0001726;ruffle;0.045608620385925;218397!GO:0043523;regulation of neuron apoptosis;0.045608620385925;218397!GO:0051402;neuron apoptosis;0.045608620385925;218397!GO:0007254;JNK cascade;0.045608620385925;12421!GO:0031098;stress-activated protein kinase signaling pathway;0.045608620385925;12421!GO:0051028;mRNA transport;0.045608620385925;75826!GO:0044267;cellular protein metabolic process;0.045608620385925;12421,14897,75826!GO:0044260;cellular macromolecule metabolic process;0.045608620385925;12421,14897,75826!GO:0050658;RNA transport;0.045608620385925;75826!GO:0051236;establishment of RNA localization;0.045608620385925;75826!GO:0050657;nucleic acid transport;0.045608620385925;75826!GO:0006403;RNA localization;0.045608620385925;75826!GO:0005643;nuclear pore;0.045608620385925;75826!GO:0048523;negative regulation of cellular process;0.045608620385925;12421,218397!GO:0033238;regulation of amine metabolic process;0.045608620385925;12421!GO:0001932;regulation of protein amino acid phosphorylation;0.045608620385925;12421!GO:0006521;regulation of amino acid metabolic process;0.045608620385925;12421!GO:0019538;protein metabolic process;0.045608620385925;12421,14897,75826!GO:0065002;intracellular protein transport across a membrane;0.045608620385925;75826!GO:0015931;nucleobase, nucleoside, nucleotide and nucleic acid transport;0.045608620385925;75826!GO:0042325;regulation of phosphorylation;0.045608620385925;12421!GO:0051174;regulation of phosphorus metabolic process;0.045608620385925;12421!GO:0046930;pore complex;0.045608620385925;75826!GO:0019220;regulation of phosphate metabolic process;0.045608620385925;12421!GO:0048519;negative regulation of biological process;0.0475471885050719;12421,218397!GO:0044453;nuclear membrane part;0.0475471885050719;75826!GO:0031965;nuclear membrane;0.0480751614853807;75826!
}}

Latest revision as of 16:25, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:85428687..85428741,-p2@Rasa1
Mm9::chr16:22009544..22009616,+p1@Senp2
Mm9::chr1:157820335..157820389,-p2@Cep350
Mm9::chr1:6204708..6204764,+p1@Rb1cc1
Mm9::chr1:84835897..84835966,-p1@Trip12
Mm9::chr2:173485023..173485053,-p1@Ppp4r1l-ps
Mm9::chr4:132478402..132478459,-p1@Fam76a


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:0043066negative regulation of apoptosis0.0245418935033708
GO:0043069negative regulation of programmed cell death0.0245418935033708
GO:0016926protein desumoylation0.0245418935033708
GO:0045793positive regulation of cell size0.0404766219854952
GO:0043687post-translational protein modification0.0404766219854952
GO:0006464protein modification process0.045608620385925
GO:0043412biopolymer modification0.045608620385925
GO:0042981regulation of apoptosis0.045608620385925
GO:0043067regulation of programmed cell death0.045608620385925
GO:0006512ubiquitin cycle0.045608620385925
GO:0009887organ morphogenesis0.045608620385925
GO:0001889liver development0.045608620385925
GO:0043524negative regulation of neuron apoptosis0.045608620385925
GO:0001934positive regulation of protein amino acid phosphorylation0.045608620385925
GO:0033240positive regulation of amine metabolic process0.045608620385925
GO:0045764positive regulation of amino acid metabolic process0.045608620385925
GO:0006915apoptosis0.045608620385925
GO:0001570vasculogenesis0.045608620385925
GO:0012501programmed cell death0.045608620385925
GO:0008219cell death0.045608620385925
GO:0016265death0.045608620385925
GO:0001726ruffle0.045608620385925
GO:0043523regulation of neuron apoptosis0.045608620385925
GO:0051402neuron apoptosis0.045608620385925
GO:0007254JNK cascade0.045608620385925
GO:0031098stress-activated protein kinase signaling pathway0.045608620385925
GO:0051028mRNA transport0.045608620385925
GO:0044267cellular protein metabolic process0.045608620385925
GO:0044260cellular macromolecule metabolic process0.045608620385925
GO:0050658RNA transport0.045608620385925
GO:0051236establishment of RNA localization0.045608620385925
GO:0050657nucleic acid transport0.045608620385925
GO:0006403RNA localization0.045608620385925
GO:0005643nuclear pore0.045608620385925
GO:0048523negative regulation of cellular process0.045608620385925
GO:0033238regulation of amine metabolic process0.045608620385925
GO:0001932regulation of protein amino acid phosphorylation0.045608620385925
GO:0006521regulation of amino acid metabolic process0.045608620385925
GO:0019538protein metabolic process0.045608620385925
GO:0065002intracellular protein transport across a membrane0.045608620385925
GO:0015931nucleobase, nucleoside, nucleotide and nucleic acid transport0.045608620385925
GO:0042325regulation of phosphorylation0.045608620385925
GO:0051174regulation of phosphorus metabolic process0.045608620385925
GO:0046930pore complex0.045608620385925
GO:0019220regulation of phosphate metabolic process0.045608620385925
GO:0048519negative regulation of biological process0.0475471885050719
GO:0044453nuclear membrane part0.0475471885050719
GO:0031965nuclear membrane0.0480751614853807



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
adult organism1.31e-0751


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)
MA0003.12.21402
MA0004.10.481116
MA0006.10.837454
MA0007.12.04776
MA0009.10.92425
MA0014.12.85278
MA0017.10.337808
MA0019.10.740036
MA0024.10.880057
MA0025.11.15921
MA0027.12.57545
MA0028.10.860672
MA0029.10.858105
MA0030.10.864739
MA0031.10.828781
MA0038.10.62758
MA0040.10.936879
MA0041.10.404721
MA0042.10.391504
MA0043.11.02178
MA0046.10.960497
MA0048.10.801219
MA0050.10.520357
MA0051.10.636645
MA0052.10.945011
MA0055.11.0092
MA0056.10
MA0057.10.756125
MA0058.10.384683
MA0059.10.397033
MA0060.10.232592
MA0061.10.724575
MA0063.10
MA0066.11.49567
MA0067.11.27078
MA0068.10.771749
MA0069.10.945354
MA0070.10.93557
MA0071.10.519509
MA0072.10.927016
MA0073.11.85276
MA0074.10.580087
MA0076.10.938908
MA0077.10.905143
MA0078.10.670113
MA0081.10.420276
MA0083.11.02098
MA0084.11.59945
MA0087.10.977537
MA0088.10.598004
MA0089.10
MA0090.11.1347
MA0091.10.494398
MA0092.10.446857
MA0093.10.329976
MA0095.10
MA0098.10
MA0100.10.568369
MA0101.10.406019
MA0103.10.348572
MA0105.10.9471
MA0106.10.677988
MA0107.10.342432
MA0108.20.763162
MA0109.10
MA0111.10.460823
MA0113.10.649407
MA0114.10.259463
MA0115.11.0246
MA0116.10.311187
MA0117.10.992087
MA0119.10.40661
MA0122.11.01209
MA0124.11.21735
MA0125.11.14291
MA0130.10
MA0131.10.735438
MA0132.10
MA0133.10
MA0135.11.05845
MA0136.10.600242
MA0139.11.10833
MA0140.10.568252
MA0141.10.964041
MA0142.10.814115
MA0143.10.665982
MA0144.10.72625
MA0145.10.304732
MA0146.10.792204
MA0147.10.274511
MA0148.10.49752
MA0149.10.411562
MA0062.20.967192
MA0035.20.573016
MA0039.23.41853
MA0138.20.727395
MA0002.20.205289
MA0137.20.365364
MA0104.20.218974
MA0047.20.626803
MA0112.21.5617
MA0065.20.305574
MA0150.10.465855
MA0151.10
MA0152.10.626912
MA0153.11.07519
MA0154.10.126143
MA0155.10.687925
MA0156.10.936991
MA0157.10.781683
MA0158.10
MA0159.10.284457
MA0160.10.50056
MA0161.10
MA0162.15.32313
MA0163.11.20194
MA0164.10.600609
MA0080.20.343316
MA0018.21.48306
MA0099.20.721008
MA0079.210.4659
MA0102.21.65195
MA0258.10.688848
MA0259.10.26402
MA0442.10
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