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MCL coexpression mm9:219: Difference between revisions

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{{MCL_coexpression_mm9
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response;0.0275006151367407;19695!GO:0035300;inositol trisphosphate 5/6-kinase activity;0.0278036487152797;217837!GO:0051765;inositol tetrakisphosphate kinase activity;0.0278036487152797;217837!GO:0047325;inositol tetrakisphosphate 1-kinase activity;0.0278036487152797;217837!GO:0016176;superoxide-generating NADPH oxidase activator activity;0.0280353446395364;71893!GO:0043647;inositol phosphate metabolic process;0.0280353446395364;217837!GO:0032957;inositol trisphosphate metabolic process;0.0280353446395364;217837!GO:0002526;acute inflammatory response;0.0280353446395364;19695!GO:0006950;response to stress;0.0307422181886886;19695,12362,14776!|ontology_enrichment_celltype=CL:0000239!6.41e-22!6;CL:0000677!6.41e-22!6;CL:0000212!6.41e-22!6;CL:0000584!6.41e-22!6;CL:0002563!4.02e-19!9;CL:0002251!4.02e-19!9;CL:0000075!1.02e-18!7;CL:0000066!2.95e-13!25;CL:0000627!2.10e-12!3;CL:0000682!2.10e-12!3;CL:0002076!3.91e-11!15;CL:0000223!3.92e-08!20|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0000344!2.57e-39!15;UBERON:0000160!3.10e-34!31;UBERON:0001242!1.77e-32!13;UBERON:0000060!1.77e-32!13;UBERON:0001262!1.77e-32!13;UBERON:0004786!1.77e-32!13;UBERON:0004923!1.14e-23!24;UBERON:0005409!1.88e-21!47;UBERON:0003350!4.02e-19!9;UBERON:0004808!4.02e-19!9;UBERON:0001277!4.02e-19!9;UBERON:0000485!1.70e-15!11;UBERON:0002108!3.43e-15!4;UBERON:0000331!2.71e-12!3;UBERON:0002116!2.71e-12!3;UBERON:0001204!2.71e-12!3;UBERON:0001168!2.71e-12!3;UBERON:0001007!8.34e-09!116;UBERON:0001555!8.34e-09!116;UBERON:0007026!8.34e-09!116;UBERON:0004119!1.36e-08!118;UBERON:0000925!1.36e-08!118;UBERON:0006595!1.36e-08!118;UBERON:0001962!1.95e-08!2;UBERON:0001961!1.95e-08!2;UBERON:0001744!1.95e-08!2;UBERON:0004921!7.66e-07!114|tfbs_overrepresentation_for_novel_motifs=0.0337853,0.00306044,0.113995,0.175377,0.11938,0.742587,0.29251,0.31767,0.348171,0.0493602,0.0681347,0.277896,0.491441,0.0921882,1.41157,0,0.199777,2.02667,0.00846381,0.216828,1.82358,0.668291,0.0917729,0.117677,0.530939,0.105276,0.140658,0.0583037,0.0141199,0.0329823,0.0532925,0.740605,0.108365,0.319439,0.139191,0.0416882,0.0337494,0.0797829,0.316009,0.402642,0.655882,0.0551024,0.431944,1.8302,0.203251,0.1645,0.151073,0.0641975,0.306141,0.352666,0.552653,0.118842,0.0287439,0.37598,0.389905,0.0955072,0.924041,0.262717,0.223586,0.0945544,0.254508,0.123779,0.233189,0.181599,0.100788,0.597583,0.503044,0.81757,0.251228,0.681742,0.0993148,0.737272,2.52217e-05,0.417048,0.0200148,0.442831,0.0185563,0.144582,0.242532,1.41641,0.34048,0.211086,0.123019,0.297743,0.325875,0.0116703,0.00822087,0.0114693,0.153906,0.971002,0.563419,0.329674,0.277951,0.0450587,0.00419546,0.895728,0.47974,0.279988,0.151219,0.0502445,0.211873,0.268528,0.36221,0.189022,0.188358,0.0549469,0.227389,0.062665,0.021161,0.0876002,0.306923,0.363613,0.225723,0.0701947,0.569603,0.648467,0.0288783,0.047388,0.581387,0.0951065,0.421465,0.504314,0.106172,0.14407,0.617553,0.686086,0.627857,0.273057,0.501748,0.267005,0.348935,0.381713,0.476627,0.102,1.43728,0.0561071,0.604363,0.0556016,0.54549,1.3282,0.940622,0.507078,0.361045,0.757844,1.63791,0.0552627,1.45493,1.28935,0.337991,0.252571,0.012097,0.0436816,0.377227,0.0205799,0.101553,0.443629,0.119365,0.153349,0.0331299,0.0360045,1.36373,0.868482,0.245404,0.0313438,1.62621,0.0980114,0.0332957,0.580563,0.0300372|tfbs_overrepresentation_jaspar=MA0003.1;0.00818258,MA0004.1;0.0463278,MA0006.1;0.13339,MA0007.1;0.658457,MA0009.1;0.28789,MA0014.1;0.0154064,MA0017.1;0.840615,MA0019.1;0.497064,MA0024.1;0.256408,MA0025.1;0.472823,MA0027.1;1.82121,MA0028.1;0.0536096,MA0029.1;0.241245,MA0030.1;0.245792,MA0031.1;0.221516,MA0038.1;0.698324,MA0040.1;0.29711,MA0041.1;0.492816,MA0042.1;0.243023,MA0043.1;0.361422,MA0046.1;0.314603,MA0048.1;0.0514729,MA0050.1;0.816849,MA0051.1;0.354431,MA0052.1;0.303096,MA0055.1;0.000904837,MA0056.1;0,MA0057.1;0.0162903,MA0058.1;0.0213244,MA0059.1;0.0239063,MA0060.1;0.0174667,MA0061.1;0.762709,MA0063.1;0,MA0066.1;0.328556,MA0067.1;0.568484,MA0068.1;0.00124235,MA0069.1;0.303349,MA0070.1;0.803064,MA0071.1;0.215192,MA0072.1;1.43711,MA0073.1;1.39938e-12,MA0074.1;1.48852,MA0076.1;0.0161593,MA0077.1;2.1191,MA0078.1;0.79512,MA0081.1;0.533447,MA0083.1;0.360799,MA0084.1;2.01686,MA0087.1;0.873394,MA0088.1;0.0315836,MA0089.1;0,MA0090.1;0.333785,MA0091.1;0.0506469,MA0092.1;0.33434,MA0093.1;0.0119855,MA0095.1;0,MA0098.1;0,MA0100.1;0.0784991,MA0101.1;0.795693,MA0103.1;1.23925,MA0105.1;0.302934,MA0106.1;0.40952,MA0107.1;0.861369,MA0108.2;1.61188,MA0109.1;0,MA0111.1;0.0401376,MA0113.1;0.747569,MA0114.1;0.510981,MA0115.1;2.5604,MA0116.1;0.471029,MA0117.1;0.33849,MA0119.1;0.109947,MA0122.1;0.353887,MA0124.1;0.522168,MA0125.1;0.459209,MA0130.1;0,MA0131.1;0.163115,MA0132.1;0,MA0133.1;0,MA0135.1;0.390343,MA0136.1;0.308328,MA0139.1;0.0362598,MA0140.1;0.569543,MA0141.1;0.40191,MA0142.1;0.211884,MA0143.1;0.785571,MA0144.1;0.32677,MA0145.1;0.0399505,MA0146.1;0.00357915,MA0147.1;0.0932973,MA0148.1;0.0516927,MA0149.1;0.510557,MA0062.2;0.018869,MA0035.2;0.978521,MA0039.2;0.00551455,MA0138.2;0.158423,MA0002.2;0.486186,MA0137.2;0.966054,MA0104.2;0.0467404,MA0047.2;0.104862,MA0112.2;0.135049,MA0065.2;0.606287,MA0150.1;0.658136,MA0151.1;0,MA0152.1;0.696832,MA0153.1;0.403751,MA0154.1;0.764855,MA0155.1;0.106371,MA0156.1;0.372842,MA0157.1;0.191171,MA0158.1;0,MA0159.1;0.103412,MA0160.1;0.433091,MA0161.1;0,MA0162.1;0.0145667,MA0163.1;9.58631e-07,MA0164.1;0.092587,MA0080.2;0.343538,MA0018.2;0.0971053,MA0099.2;0.915183,MA0079.2;2.49616e-13,MA0102.2;0.917775,MA0258.1;0.683745,MA0259.1;0.083201,MA0442.1;0}}
|coexpression_dpi_cluster_scores_mean=0.0341640825527593,1.09853169939601,1.18049250875012,0.558621066174719,0.66510430866248,0.647908762626116,0.861762003391927,0.0147022436296279,-0.00101331390499841,0.0005891883028639,-0.00414742107193067,-0.00425618043155285,0.00816596751264478,0.0129274173958941,0.00662322662534768,0.00352159127698573,-0.000104939706075043,0.00291028013396092,0.00190374271425445,0.000808762534136583,0.0997995003685712,-0.00148677446258811,-0.00130014785978671,0.83722909799676,0.923412846838566,1.22466066756742,1.14577184400353,1.13196224088722,1.16170366719313,0.858787657345531,1.49520210491712,-0.00586336423414752,-0.000658615520625555,-0.00586336423414752,0.221820399087002,0.217002138182687,0.171564745569813,0.0233939439273831,0.000405277892899982,0.0146381179111105,0.0122950798748505,0.0147922143735051,0.00702731198315972,0.00506699354616794,-7.07345232894197e-05,-0.000638773289844051,0.0198037463312634,-0.00158055133143977,-0.00586336423414752,-0.00393434758037993,0.00459541397649746,-0.00586336423414752,-0.00417931417879882,0.0126059501710532,-0.00028123927963368,0.00283249286839367,-0.00312783725921487,-0.00586336423414752,0.00697670142549228,0.00658279792436164,0.011032359456218,0.00292267633766915,-0.00586336423414752,0.0186246349543835,0.00598377861159316,0.00373632714501612,-0.000765793205722855,0.00385648790061747,0.000460002413483013,-0.000672975117638975,0.00176098936773744,0.0100447517675857,0.018236762639331,0.0011682430437258,0.000772180584448525,-0.00586336423414752,0.00998212148309333,0.0141719672725989,0.0161340755392905,0.00262328029821118,0.00409766797270313,-0.00586336423414752,0.0148982873990677,0.0145681805126169,0.0133611203699861,0.0106929936939126,0.0212628698355112,0.00572699091484321,0.013956650808174,0.00410642754959501,0.0343952921648846,0.0257284685568319,0.0487950100849042,-0.00586336423414752,0.0214455574625533,0.0152531497501689,0.155050292499806,0.000828549119676095,-0.00335594475131007,-0.00586336423414752,0.0414963299009035,-0.00586336423414752,-0.00586336423414752,-0.00586336423414752,0.161845900141323,0.113813983137462,0.160409831126173,0.35775747003745,0.0265613368448864,-0.000361487732851607,0.00258141387902817,0.00278499833979858,0.000895814258163305,0.00257197101514564,0.00593836377781918,0.00575111508227316,0.134995922314329,-0.000172692766454842,0.00789771668621783,0.03241780814773,0.0100051725726609,0.0184701984279623,0.358950715173034,0.00903035146765661,0.0167801053247138,0.757161881217962,0.0327301210532075,0.0145459937391369,0.0346802946945773,0.01540896575883,0.00760701814579323,0.00227708417554312,0.00985130844091047,0.0118450029150523,0.0164724782690429,0.020313254796025,0.00292523258315688,0.0501432940877842,0.0755399505230336,0.0225829787506983,0.000487432306557392,-0.00136983700349216,0.00913604752075451,0.014811936141426,0.0158964828314073,0.00858721953931789,0.00788144822430227,0.0133394109106396,-0.00374388282990689,0.000896080458845392,0.000498409485303957,0.00238723489170064,0.00552335735122168,0.0352173912037277,0.0177740166931838,-0.000780042454140825,0.0217445433272122,0.0130054163643952,0.0178489304397199,0.00403124148931465,-0.00168743412818559,-0.00586336423414752,-0.0012493607145646,0.00307399240564271,0.00613071402930949,0.00282302395467505,0.0132763404182883,0.02465911268492,0.00656543466313631,0.0196035265686498,0.0185695120618712,0.0144737945304833,0.018292668559577,0.0135280572568381,0.00692163445795167,-0.00267301776228686,0.482576395704292,0.693432398832838,0.00395048886053752,-0.001721327457133,0.0192320078880457,0.0710329367675523,0.104828114000378,0.169563554893538,0.585786414436163,0.185956572768901,0.193948385396804,0.197917042936899,0.204986572370826,0.591942108884409,0.417792733014227,0.378278432189858,-0.00237161401265043,0.00964595558258603,0.0336676310141895,0.0351900942922084,0.0425454222637332,0.0616675557764548,0.0794955275779301,0.0967276847731656,0.0981773708460393,0.10933587437915,0.00544586480610816,-0.0010616599187894,-0.00391501133612156,-0.00586336423414752,-0.00185260788964673,-0.00586336423414752,0.00152520316630189,0.00456202320386011,0.0191750291493753,0.039138366431034,0.0366524649997106,0.0456836568645584,0.0598435938536806,0.0366449634186215,0.0333969722445722,0.0249280509159881,0.0567790010880591,-0.00237439281702164,0.000693299348155545,0.00951431409043542,0.00779204982774611,0.0155682930480094,0.0405990439795659,0.0469653164318253,0.0362576289212914,0.0220447912592539,0.038150233911988,0.0633675799838061,0.0725161824687746,0.0482202185183059,0.0240850686792918,0.0371019706407065,0.061879222549828,0.0744279679703344,0.0150023585405071,0.0207434635683405,-0.00113625846241457,0.025916967789764,0.0161852846273489,0.00882056385035371,0.00300253067104144,0.00713723176152971,-0.00186218066228842,-0.000450736173466718,0.000576328871911858,0.0109498479488412,0.00804856628604067,0.0172847601562842,0.0263005806130796,0.0071779850606483,0.00286078972456952,0.0751753373916278,0.0286213141099927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|gostat_on_MCL_coexpression=GO:0006953;acute-phase response;0.0275006151367407;19695!GO:0035300;inositol trisphosphate 5/6-kinase activity;0.0278036487152797;217837!GO:0051765;inositol tetrakisphosphate kinase activity;0.0278036487152797;217837!GO:0047325;inositol tetrakisphosphate 1-kinase activity;0.0278036487152797;217837!GO:0016176;superoxide-generating NADPH oxidase activator activity;0.0280353446395364;71893!GO:0043647;inositol phosphate metabolic process;0.0280353446395364;217837!GO:0032957;inositol trisphosphate metabolic process;0.0280353446395364;217837!GO:0002526;acute inflammatory response;0.0280353446395364;19695!GO:0006950;response to stress;0.0307422181886886;19695,12362,14776!
}}

Latest revision as of 14:54, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:68369811..68369821,+p5@Mfsd6l
Mm9::chr11:78734321..78734336,+p1@Nos2
Mm9::chr12:103965542..103965564,-p@chr12:103965542..103965564
-
Mm9::chr12:77896303..77896342,-p@chr12:77896303..77896342
-
Mm9::chr15:94459667..94459701,+p1@Tmem117
Mm9::chr16:18629886..18629899,-p@chr16:18629886..18629899
-
Mm9::chr16:33794199..33794208,+p7@Muc13
Mm9::chr16:33794221..33794247,+p5@Muc13
Mm9::chr16:34943355..34943373,-p@chr16:34943355..34943373
-
Mm9::chr17:24835239..24835290,+p1@Noxo1
Mm9::chr17:37004048..37004055,-p4@Trim15
Mm9::chr17:37004061..37004104,-p1@Trim15
Mm9::chr18:35886629..35886648,+p1@1700066B19Rik
Mm9::chr18:35886673..35886693,+p3@1700066B19Rik
Mm9::chr19:41337833..41337868,+p@chr19:41337833..41337868
+
Mm9::chr3:103636664..103636763,+p1@Bcl2l15
Mm9::chr4:133899408..133899421,+p9@Slc30a2
Mm9::chr6:78321036..78321044,+p@chr6:78321036..78321044
+
Mm9::chr6:78323455..78323458,-p@chr6:78323455..78323458
-
Mm9::chr6:78416391..78416410,+p@chr6:78416391..78416410
+
Mm9::chr6:78416506..78416522,-p@chr6:78416506..78416522
-
Mm9::chr6:78416766..78416773,+p@chr6:78416766..78416773
+
Mm9::chr6:78416806..78416819,+p@chr6:78416806..78416819
+
Mm9::chr6:78416808..78416822,-p@chr6:78416808..78416822
-
Mm9::chr6:78416850..78416860,-p@chr6:78416850..78416860
-
Mm9::chr6:78416874..78416888,-p@chr6:78416874..78416888
-
Mm9::chr6:78417498..78417509,-p@chr6:78417498..78417509
-
Mm9::chr6:78417510..78417520,-p@chr6:78417510..78417520
-
Mm9::chr6:78417539..78417569,-p@chr6:78417539..78417569
-
Mm9::chr6:78417572..78417600,-p@chr6:78417572..78417600
-
Mm9::chr6:78417835..78417870,-p@chr6:78417835..78417870
-
Mm9::chr6:78417872..78417919,-p@chr6:78417872..78417919
-
Mm9::chr6:78418516..78418525,-p@chr6:78418516..78418525
-
Mm9::chr6:78418536..78418572,-p@chr6:78418536..78418572
-
Mm9::chr6:78418857..78418872,-p1@Reg3g
Mm9::chr7:108709377..108709380,-p1@Art2a-ps
Mm9::chr7:138141963..138141967,-p@chr7:138141963..138141967
-
Mm9::chr9:5299402..5299415,+p@chr9:5299402..5299415
+
Mm9::chr9:65270665..65270680,-p2@Ostb
Mm9::chr9:65270702..65270717,-p1@Ostb


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:0006953acute-phase response0.0275006151367407
GO:0035300inositol trisphosphate 5/6-kinase activity0.0278036487152797
GO:0051765inositol tetrakisphosphate kinase activity0.0278036487152797
GO:0047325inositol tetrakisphosphate 1-kinase activity0.0278036487152797
GO:0016176superoxide-generating NADPH oxidase activator activity0.0280353446395364
GO:0043647inositol phosphate metabolic process0.0280353446395364
GO:0032957inositol trisphosphate metabolic process0.0280353446395364
GO:0002526acute inflammatory response0.0280353446395364
GO:0006950response to stress0.0307422181886886



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>

Uber Anatomy
Ontology termp-valuen
mucosa2.57e-3915
intestine3.10e-3431
intestinal mucosa1.77e-3213
anatomical wall1.77e-3213
wall of intestine1.77e-3213
gastrointestinal system mucosa1.77e-3213
organ component layer1.14e-2324
gastrointestinal system1.88e-2147
epithelium of mucosa4.02e-199
gastrointestinal system epithelium4.02e-199
intestinal epithelium4.02e-199
simple columnar epithelium1.70e-1511
small intestine3.43e-154
ileal mucosa2.71e-123
ileum2.71e-123
mucosa of small intestine2.71e-123
wall of small intestine2.71e-123
digestive system8.34e-09116
digestive tract8.34e-09116
primitive gut8.34e-09116
endoderm-derived structure1.36e-08118
endoderm1.36e-08118
presumptive endoderm1.36e-08118
gut-associated lymphoid tissue1.95e-082
mucosa-associated lymphoid tissue1.95e-082
lymphoid tissue1.95e-082
subdivision of digestive tract7.66e-07114


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)
MA0003.10.00818258
MA0004.10.0463278
MA0006.10.13339
MA0007.10.658457
MA0009.10.28789
MA0014.10.0154064
MA0017.10.840615
MA0019.10.497064
MA0024.10.256408
MA0025.10.472823
MA0027.11.82121
MA0028.10.0536096
MA0029.10.241245
MA0030.10.245792
MA0031.10.221516
MA0038.10.698324
MA0040.10.29711
MA0041.10.492816
MA0042.10.243023
MA0043.10.361422
MA0046.10.314603
MA0048.10.0514729
MA0050.10.816849
MA0051.10.354431
MA0052.10.303096
MA0055.10.000904837
MA0056.10
MA0057.10.0162903
MA0058.10.0213244
MA0059.10.0239063
MA0060.10.0174667
MA0061.10.762709
MA0063.10
MA0066.10.328556
MA0067.10.568484
MA0068.10.00124235
MA0069.10.303349
MA0070.10.803064
MA0071.10.215192
MA0072.11.43711
MA0073.11.39938e-12
MA0074.11.48852
MA0076.10.0161593
MA0077.12.1191
MA0078.10.79512
MA0081.10.533447
MA0083.10.360799
MA0084.12.01686
MA0087.10.873394
MA0088.10.0315836
MA0089.10
MA0090.10.333785
MA0091.10.0506469
MA0092.10.33434
MA0093.10.0119855
MA0095.10
MA0098.10
MA0100.10.0784991
MA0101.10.795693
MA0103.11.23925
MA0105.10.302934
MA0106.10.40952
MA0107.10.861369
MA0108.21.61188
MA0109.10
MA0111.10.0401376
MA0113.10.747569
MA0114.10.510981
MA0115.12.5604
MA0116.10.471029
MA0117.10.33849
MA0119.10.109947
MA0122.10.353887
MA0124.10.522168
MA0125.10.459209
MA0130.10
MA0131.10.163115
MA0132.10
MA0133.10
MA0135.10.390343
MA0136.10.308328
MA0139.10.0362598
MA0140.10.569543
MA0141.10.40191
MA0142.10.211884
MA0143.10.785571
MA0144.10.32677
MA0145.10.0399505
MA0146.10.00357915
MA0147.10.0932973
MA0148.10.0516927
MA0149.10.510557
MA0062.20.018869
MA0035.20.978521
MA0039.20.00551455
MA0138.20.158423
MA0002.20.486186
MA0137.20.966054
MA0104.20.0467404
MA0047.20.104862
MA0112.20.135049
MA0065.20.606287
MA0150.10.658136
MA0151.10
MA0152.10.696832
MA0153.10.403751
MA0154.10.764855
MA0155.10.106371
MA0156.10.372842
MA0157.10.191171
MA0158.10
MA0159.10.103412
MA0160.10.433091
MA0161.10
MA0162.10.0145667
MA0163.19.58631e-07
MA0164.10.092587
MA0080.20.343538
MA0018.20.0971053
MA0099.20.915183
MA0079.22.49616e-13
MA0102.20.917775
MA0258.10.683745
MA0259.10.083201
MA0442.10
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