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MCL coexpression mm9:461: Difference between revisions

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{{MCL_coexpression_mm9
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883024,0.333097401810101,0.260123047271308,0.150442929598185,0.17392086126324,0.303779808091497,0.229284183145685,0.223338609498365,0,0.305883762064126,0.35968873130767,0,0.0743958279977058,0|gostat_on_MCL_coexpression=GO:0006644;phospholipid metabolic process;0.0100646322602822;11806,66461!GO:0006643;membrane lipid metabolic process;0.0100646322602822;11806,66461!GO:0008035;high-density lipoprotein binding;0.0100646322602822;11806!GO:0043534;blood vessel endothelial cell migration;0.0100646322602822;11806!GO:0006066;alcohol metabolic process;0.0100646322602822;11806,230163!GO:0030300;regulation of cholesterol absorption;0.0100646322602822;11806!GO:0033344;cholesterol efflux;0.0100646322602822;11806!GO:0030299;cholesterol absorption;0.0100646322602822;11806!GO:0051346;negative regulation of hydrolase activity;0.0100646322602822;11806!GO:0044241;lipid digestion;0.0100646322602822;11806!GO:0004332;fructose-bisphosphate aldolase activity;0.0100646322602822;230163!GO:0004439;phosphoinositide 5-phosphatase activity;0.0100646322602822;66461!GO:0017127;cholesterol transporter activity;0.0104993479606997;11806!GO:0043542;endothelial cell migration;0.0104993479606997;11806!GO:0016832;aldehyde-lyase activity;0.0104993479606997;230163!GO:0015248;sterol transporter activity;0.0104993479606997;11806!GO:0001935;endothelial cell proliferation;0.0104993479606997;11806!GO:0050892;intestinal absorption;0.0104993479606997;11806!GO:0008211;glucocorticoid metabolic process;0.0104993479606997;11806!GO:0030325;adrenal gland development;0.0104993479606997;11806!GO:0019915;sequestering of lipid;0.0104993479606997;11806!GO:0046488;phosphatidylinositol metabolic process;0.0104993479606997;66461!GO:0042577;lipid phosphatase activity;0.0104993479606997;66461!GO:0022600;digestive system process;0.0125187001789079;11806!GO:0008034;lipoprotein binding;0.0125187001789079;11806!GO:0044255;cellular lipid metabolic process;0.0125187001789079;11806,66461!GO:0030301;cholesterol transport;0.0125187001789079;11806!GO:0015918;sterol transport;0.012933152358935;11806!GO:0006629;lipid metabolic process;0.0151075883712702;11806,66461!GO:0006695;cholesterol biosynthetic process;0.0176972577212691;11806!GO:0016126;sterol biosynthetic process;0.0225670200839581;11806!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0226144161912928;66461!GO:0006793;phosphorus metabolic process;0.0231003898986493;11806,66461!GO:0006796;phosphate metabolic process;0.0231003898986493;11806,66461!GO:0008138;protein tyrosine/serine/threonine phosphatase activity;0.0241154328663319;66461!GO:0016830;carbon-carbon lyase activity;0.0253987668275815;230163!GO:0007586;digestion;0.0253987668275815;11806!GO:0030384;phosphoinositide metabolic process;0.0253987668275815;66461!GO:0006096;glycolysis;0.0253987668275815;230163!GO:0005319;lipid transporter activity;0.0253987668275815;11806!GO:0042158;lipoprotein biosynthetic process;0.0253987668275815;11806!GO:0043086;negative regulation of catalytic activity;0.0253987668275815;11806!GO:0035270;endocrine system development;0.0253987668275815;11806!GO:0033238;regulation of amine metabolic process;0.0253987668275815;11806!GO:0001932;regulation of protein amino acid phosphorylation;0.0253987668275815;11806!GO:0006521;regulation of amino acid metabolic process;0.0253987668275815;11806!GO:0006007;glucose catabolic process;0.0253987668275815;230163!GO:0046365;monosaccharide catabolic process;0.0253987668275815;230163!GO:0019320;hexose catabolic process;0.0253987668275815;230163!GO:0042325;regulation of phosphorylation;0.0253987668275815;11806!GO:0051174;regulation of phosphorus metabolic process;0.0253987668275815;11806!GO:0046164;alcohol catabolic process;0.0253987668275815;230163!GO:0019220;regulation of phosphate metabolic process;0.0253987668275815;11806!GO:0042157;lipoprotein metabolic process;0.0253987668275815;11806!GO:0006650;glycerophospholipid metabolic process;0.0253987668275815;66461!GO:0008203;cholesterol metabolic process;0.0275166999907174;11806!GO:0044275;cellular carbohydrate catabolic process;0.0278757035020892;230163!GO:0006694;steroid biosynthetic process;0.0286356062966939;11806!GO:0016125;sterol metabolic process;0.0287214385786459;11806!GO:0016052;carbohydrate catabolic process;0.0287214385786459;230163!GO:0006869;lipid transport;0.0287214385786459;11806!GO:0048732;gland development;0.0287214385786459;11806!GO:0042445;hormone metabolic process;0.0306269909533715;11806!GO:0043687;post-translational protein modification;0.0306269909533715;11806,66461!GO:0004725;protein tyrosine phosphatase activity;0.0318174451233092;66461!GO:0051347;positive regulation of transferase activity;0.0324231184672487;11806!GO:0006006;glucose metabolic process;0.0347948497498764;230163!GO:0006470;protein amino acid dephosphorylation;0.0373990372565175;66461!GO:0006464;protein modification process;0.0373990372565175;11806,66461!GO:0051336;regulation of hydrolase activity;0.0373990372565175;11806!GO:0043412;biopolymer modification;0.0391151911267399;11806,66461!GO:0016311;dephosphorylation;0.0393429465131948;66461!GO:0019318;hexose metabolic process;0.0426022080885103;230163!GO:0043085;positive regulation of catalytic activity;0.0426022080885103;11806!GO:0005996;monosaccharide metabolic process;0.0426022080885103;230163!GO:0051338;regulation of transferase activity;0.0426022080885103;11806!GO:0008202;steroid metabolic process;0.0435943265602065;11806!GO:0004721;phosphoprotein phosphatase activity;0.0442552835622009;66461!GO:0016829;lyase activity;0.0456561661233562;230163!GO:0043170;macromolecule metabolic 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|gostat_on_MCL_coexpression=GO:0006644;phospholipid metabolic process;0.0100646322602822;11806,66461!GO:0006643;membrane lipid metabolic process;0.0100646322602822;11806,66461!GO:0008035;high-density lipoprotein binding;0.0100646322602822;11806!GO:0043534;blood vessel endothelial cell migration;0.0100646322602822;11806!GO:0006066;alcohol metabolic process;0.0100646322602822;11806,230163!GO:0030300;regulation of cholesterol absorption;0.0100646322602822;11806!GO:0033344;cholesterol efflux;0.0100646322602822;11806!GO:0030299;cholesterol absorption;0.0100646322602822;11806!GO:0051346;negative regulation of hydrolase activity;0.0100646322602822;11806!GO:0044241;lipid digestion;0.0100646322602822;11806!GO:0004332;fructose-bisphosphate aldolase activity;0.0100646322602822;230163!GO:0004439;phosphoinositide 5-phosphatase activity;0.0100646322602822;66461!GO:0017127;cholesterol transporter activity;0.0104993479606997;11806!GO:0043542;endothelial cell migration;0.0104993479606997;11806!GO:0016832;aldehyde-lyase activity;0.0104993479606997;230163!GO:0015248;sterol transporter activity;0.0104993479606997;11806!GO:0001935;endothelial cell proliferation;0.0104993479606997;11806!GO:0050892;intestinal absorption;0.0104993479606997;11806!GO:0008211;glucocorticoid metabolic process;0.0104993479606997;11806!GO:0030325;adrenal gland development;0.0104993479606997;11806!GO:0019915;sequestering of lipid;0.0104993479606997;11806!GO:0046488;phosphatidylinositol metabolic process;0.0104993479606997;66461!GO:0042577;lipid phosphatase activity;0.0104993479606997;66461!GO:0022600;digestive system process;0.0125187001789079;11806!GO:0008034;lipoprotein binding;0.0125187001789079;11806!GO:0044255;cellular lipid metabolic process;0.0125187001789079;11806,66461!GO:0030301;cholesterol transport;0.0125187001789079;11806!GO:0015918;sterol transport;0.012933152358935;11806!GO:0006629;lipid metabolic process;0.0151075883712702;11806,66461!GO:0006695;cholesterol biosynthetic process;0.0176972577212691;11806!GO:0016126;sterol biosynthetic process;0.0225670200839581;11806!GO:0004437;inositol or phosphatidylinositol phosphatase activity;0.0226144161912928;66461!GO:0006793;phosphorus metabolic process;0.0231003898986493;11806,66461!GO:0006796;phosphate metabolic process;0.0231003898986493;11806,66461!GO:0008138;protein tyrosine/serine/threonine phosphatase activity;0.0241154328663319;66461!GO:0016830;carbon-carbon lyase activity;0.0253987668275815;230163!GO:0007586;digestion;0.0253987668275815;11806!GO:0030384;phosphoinositide metabolic process;0.0253987668275815;66461!GO:0006096;glycolysis;0.0253987668275815;230163!GO:0005319;lipid transporter activity;0.0253987668275815;11806!GO:0042158;lipoprotein biosynthetic process;0.0253987668275815;11806!GO:0043086;negative regulation of catalytic activity;0.0253987668275815;11806!GO:0035270;endocrine system development;0.0253987668275815;11806!GO:0033238;regulation of amine metabolic process;0.0253987668275815;11806!GO:0001932;regulation of protein amino acid phosphorylation;0.0253987668275815;11806!GO:0006521;regulation of amino acid metabolic process;0.0253987668275815;11806!GO:0006007;glucose catabolic process;0.0253987668275815;230163!GO:0046365;monosaccharide catabolic process;0.0253987668275815;230163!GO:0019320;hexose catabolic process;0.0253987668275815;230163!GO:0042325;regulation of phosphorylation;0.0253987668275815;11806!GO:0051174;regulation of phosphorus metabolic process;0.0253987668275815;11806!GO:0046164;alcohol catabolic process;0.0253987668275815;230163!GO:0019220;regulation of phosphate metabolic process;0.0253987668275815;11806!GO:0042157;lipoprotein metabolic process;0.0253987668275815;11806!GO:0006650;glycerophospholipid metabolic process;0.0253987668275815;66461!GO:0008203;cholesterol metabolic process;0.0275166999907174;11806!GO:0044275;cellular carbohydrate catabolic process;0.0278757035020892;230163!GO:0006694;steroid biosynthetic process;0.0286356062966939;11806!GO:0016125;sterol metabolic process;0.0287214385786459;11806!GO:0016052;carbohydrate catabolic process;0.0287214385786459;230163!GO:0006869;lipid transport;0.0287214385786459;11806!GO:0048732;gland development;0.0287214385786459;11806!GO:0042445;hormone metabolic process;0.0306269909533715;11806!GO:0043687;post-translational protein modification;0.0306269909533715;11806,66461!GO:0004725;protein tyrosine phosphatase activity;0.0318174451233092;66461!GO:0051347;positive regulation of transferase activity;0.0324231184672487;11806!GO:0006006;glucose metabolic process;0.0347948497498764;230163!GO:0006470;protein amino acid dephosphorylation;0.0373990372565175;66461!GO:0006464;protein modification process;0.0373990372565175;11806,66461!GO:0051336;regulation of hydrolase activity;0.0373990372565175;11806!GO:0043412;biopolymer modification;0.0391151911267399;11806,66461!GO:0016311;dephosphorylation;0.0393429465131948;66461!GO:0019318;hexose metabolic process;0.0426022080885103;230163!GO:0043085;positive regulation of catalytic activity;0.0426022080885103;11806!GO:0005996;monosaccharide metabolic process;0.0426022080885103;230163!GO:0051338;regulation of transferase activity;0.0426022080885103;11806!GO:0008202;steroid metabolic process;0.0435943265602065;11806!GO:0004721;phosphoprotein phosphatase activity;0.0442552835622009;66461!GO:0016829;lyase activity;0.0456561661233562;230163!GO:0043170;macromolecule metabolic process;0.0456561661233562;11806,230163,66461!
}}

Latest revision as of 15:20, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:51506964..51506968,-p@chr11:51506964..51506968
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Mm9::chr14:56373291..56373319,-p@chr14:56373291..56373319
-
Mm9::chr2:90758551..90758599,-p4@Ptpmt1
Mm9::chr3:88949993..88949997,+p@chr3:88949993..88949997
+
Mm9::chr4:49554145..49554167,-p@chr4:49554145..49554167
-
Mm9::chr9:46037034..46037063,+p3@Apoa1
Mm9::chr9:46037245..46037274,+p@chr9:46037245..46037274
+
Mm9::chr9:46037284..46037329,+p@chr9:46037284..46037329
+
Mm9::chr9:46037905..46037991,+p@chr9:46037905..46037991
+
Mm9::chr9:46037992..46038069,+p@chr9:46037992..46038069
+
Mm9::chr9:46038084..46038105,+p@chr9:46038084..46038105
+
Mm9::chr9:46038124..46038147,+p@chr9:46038124..46038147
+
Mm9::chr9:46038168..46038182,+p@chr9:46038168..46038182
+
Mm9::chr9:46038285..46038313,+p@chr9:46038285..46038313
+
Mm9::chr9:46038315..46038326,+p@chr9:46038315..46038326
+
Mm9::chr9:46038334..46038346,+p@chr9:46038334..46038346
+


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:0006644phospholipid metabolic process0.0100646322602822
GO:0006643membrane lipid metabolic process0.0100646322602822
GO:0008035high-density lipoprotein binding0.0100646322602822
GO:0043534blood vessel endothelial cell migration0.0100646322602822
GO:0006066alcohol metabolic process0.0100646322602822
GO:0030300regulation of cholesterol absorption0.0100646322602822
GO:0033344cholesterol efflux0.0100646322602822
GO:0030299cholesterol absorption0.0100646322602822
GO:0051346negative regulation of hydrolase activity0.0100646322602822
GO:0044241lipid digestion0.0100646322602822
GO:0004332fructose-bisphosphate aldolase activity0.0100646322602822
GO:0004439phosphoinositide 5-phosphatase activity0.0100646322602822
GO:0017127cholesterol transporter activity0.0104993479606997
GO:0043542endothelial cell migration0.0104993479606997
GO:0016832aldehyde-lyase activity0.0104993479606997
GO:0015248sterol transporter activity0.0104993479606997
GO:0001935endothelial cell proliferation0.0104993479606997
GO:0050892intestinal absorption0.0104993479606997
GO:0008211glucocorticoid metabolic process0.0104993479606997
GO:0030325adrenal gland development0.0104993479606997
GO:0019915sequestering of lipid0.0104993479606997
GO:0046488phosphatidylinositol metabolic process0.0104993479606997
GO:0042577lipid phosphatase activity0.0104993479606997
GO:0022600digestive system process0.0125187001789079
GO:0008034lipoprotein binding0.0125187001789079
GO:0044255cellular lipid metabolic process0.0125187001789079
GO:0030301cholesterol transport0.0125187001789079
GO:0015918sterol transport0.012933152358935
GO:0006629lipid metabolic process0.0151075883712702
GO:0006695cholesterol biosynthetic process0.0176972577212691
GO:0016126sterol biosynthetic process0.0225670200839581
GO:0004437inositol or phosphatidylinositol phosphatase activity0.0226144161912928
GO:0006793phosphorus metabolic process0.0231003898986493
GO:0006796phosphate metabolic process0.0231003898986493
GO:0008138protein tyrosine/serine/threonine phosphatase activity0.0241154328663319
GO:0016830carbon-carbon lyase activity0.0253987668275815
GO:0007586digestion0.0253987668275815
GO:0030384phosphoinositide metabolic process0.0253987668275815
GO:0006096glycolysis0.0253987668275815
GO:0005319lipid transporter activity0.0253987668275815
GO:0042158lipoprotein biosynthetic process0.0253987668275815
GO:0043086negative regulation of catalytic activity0.0253987668275815
GO:0035270endocrine system development0.0253987668275815
GO:0033238regulation of amine metabolic process0.0253987668275815
GO:0001932regulation of protein amino acid phosphorylation0.0253987668275815
GO:0006521regulation of amino acid metabolic process0.0253987668275815
GO:0006007glucose catabolic process0.0253987668275815
GO:0046365monosaccharide catabolic process0.0253987668275815
GO:0019320hexose catabolic process0.0253987668275815
GO:0042325regulation of phosphorylation0.0253987668275815
GO:0051174regulation of phosphorus metabolic process0.0253987668275815
GO:0046164alcohol catabolic process0.0253987668275815
GO:0019220regulation of phosphate metabolic process0.0253987668275815
GO:0042157lipoprotein metabolic process0.0253987668275815
GO:0006650glycerophospholipid metabolic process0.0253987668275815
GO:0008203cholesterol metabolic process0.0275166999907174
GO:0044275cellular carbohydrate catabolic process0.0278757035020892
GO:0006694steroid biosynthetic process0.0286356062966939
GO:0016125sterol metabolic process0.0287214385786459
GO:0016052carbohydrate catabolic process0.0287214385786459
GO:0006869lipid transport0.0287214385786459
GO:0048732gland development0.0287214385786459
GO:0042445hormone metabolic process0.0306269909533715
GO:0043687post-translational protein modification0.0306269909533715
GO:0004725protein tyrosine phosphatase activity0.0318174451233092
GO:0051347positive regulation of transferase activity0.0324231184672487
GO:0006006glucose metabolic process0.0347948497498764
GO:0006470protein amino acid dephosphorylation0.0373990372565175
GO:0006464protein modification process0.0373990372565175
GO:0051336regulation of hydrolase activity0.0373990372565175
GO:0043412biopolymer modification0.0391151911267399
GO:0016311dephosphorylation0.0393429465131948
GO:0019318hexose metabolic process0.0426022080885103
GO:0043085positive regulation of catalytic activity0.0426022080885103
GO:0005996monosaccharide metabolic process0.0426022080885103
GO:0051338regulation of transferase activity0.0426022080885103
GO:0008202steroid metabolic process0.0435943265602065
GO:0004721phosphoprotein phosphatase activity0.0442552835622009
GO:0016829lyase activity0.0456561661233562
GO:0043170macromolecule metabolic process0.0456561661233562



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
liver2.91e-1722
epithelial sac2.91e-1722
digestive gland2.91e-1722
epithelium of foregut-midgut junction2.91e-1722
anatomical boundary2.91e-1722
hepatobiliary system2.91e-1722
foregut-midgut junction2.91e-1722
hepatic diverticulum2.91e-1722
liver primordium2.91e-1722
septum transversum2.91e-1722
liver bud2.91e-1722
intestine1.16e-1631
digestive tract diverticulum3.80e-1623
sac3.80e-1623
exocrine gland3.39e-1425
exocrine system3.39e-1425
gastrointestinal system9.24e-1447
endoderm-derived structure1.10e-12118
endoderm1.10e-12118
presumptive endoderm1.10e-12118
digestive system5.80e-12116
digestive tract5.80e-12116
primitive gut5.80e-12116
mucosa5.73e-1115
subdivision of digestive tract1.03e-10114
intestinal mucosa4.85e-0913
anatomical wall4.85e-0913
wall of intestine4.85e-0913
gastrointestinal system mucosa4.85e-0913
organ component layer5.34e-0824
trunk mesenchyme5.60e-0845
gut epithelium9.18e-0855
abdomen element9.48e-0849
abdominal segment element9.48e-0849
abdominal segment of trunk9.48e-0849
abdomen9.48e-0849


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)
MA0003.10.00105703
MA0004.10.221835
MA0006.10.105852
MA0007.10.210531
MA0009.10.599391
MA0014.10.000362989
MA0017.10.122138
MA0019.10.434009
MA0024.10.558971
MA0025.10.819843
MA0027.12.21717
MA0028.10.112137
MA0029.10.53905
MA0030.10.545058
MA0031.10.512616
MA0038.10.33811
MA0040.10.611015
MA0041.10.166538
MA0042.10.15744
MA0043.10.689898
MA0046.10.632833
MA0048.10.0196258
MA0050.11.29684
MA0051.10.345658
MA0052.10.618515
MA0055.13.2051
MA0056.10
MA0057.10.381022
MA0058.10.152805
MA0059.10.161227
MA0060.10.0623353
MA0061.10.0774738
MA0063.10
MA0066.10.328887
MA0067.10.92691
MA0068.10.203932
MA0069.10.618831
MA0070.10.609808
MA0071.10.251158
MA0072.10.601934
MA0073.14.88593e-05
MA0074.10.299171
MA0076.10.134359
MA0077.10.581866
MA0078.10.37382
MA0081.11.00846
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.10.00828903
MA0089.10
MA0090.11.08371
MA0091.10.231874
MA0092.13.20206
MA0093.10.11723
MA0095.10
MA0098.10
MA0100.10.289731
MA0101.10.167439
MA0103.10.404646
MA0105.10.0314205
MA0106.10.380511
MA0107.10.125067
MA0108.20.454274
MA0109.10
MA0111.10.206727
MA0113.10.356344
MA0114.10.263654
MA0115.10.692537
MA0116.10.105729
MA0117.10.662171
MA0119.10.502046
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.10.43
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.84684
MA0139.16.10538
MA0140.10.788302
MA0141.10.141822
MA0142.11.24833
MA0143.10.96857
MA0144.10.268209
MA0145.10.0491125
MA0146.10.00479338
MA0147.10.0844713
MA0148.10.23425
MA0149.10.171305
MA0062.20.134374
MA0035.20.293466
MA0039.20.000979253
MA0138.21.90303
MA0002.20.728364
MA0137.20.139909
MA0104.20.0556953
MA0047.20.337465
MA0112.20.73225
MA0065.20.136177
MA0150.10.210447
MA0151.10
MA0152.11.60763
MA0153.10.740107
MA0154.11.38057
MA0155.10.16166
MA0156.10.41693
MA0157.10.47062
MA0158.10
MA0159.10.0900717
MA0160.10.666246
MA0161.10
MA0162.10.00698895
MA0163.10.0215627
MA0164.10.315868
MA0080.21.2868
MA0018.20.323932
MA0099.20.417463
MA0079.20.000269007
MA0102.21.29919
MA0258.10.0692929
MA0259.10.0787033
MA0442.10
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