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Coexpression cluster:C131: Difference between revisions

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|tf_chipseq_enrich=SUZ12#23512;8:2.8843614912842:0.00703481612023718:0.029353142660066
|tf_chipseq_enrich=SUZ12#23512;8:2.8843614912842:0.00703481612023718:0.029353142660066
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0.845233,0.777216,0.994106,0.853508,0.617133,0.905273,0.999988,0.739348,1,0.847375,0.840522,0.985595,0.487194,0.432213,0.0944036,0.877339,0.85441,0.888868,0.999743,0.706655,0.998255,0.499263,0.108307,0.208348,0.903854,0.980774,0.608701,0.833036,0.474277,0.992842,0.804739,1,0.999489,0.389394,0.839362,0.999996,0.64624,0.720353,0.17327,0.952855,0.890191,0.999098,0.778674,0.915103,0.862208,0.907298,0.794357,0.703903,0.941641,0.580823,0.2176,0.47865,0.640014,0.999998,0.92338,0.878017,0.995505,0.698791,0.929242,0.0779609,0.999984,0.9359,0.393127,0.950639,0.786967,0.977717,0.683112,0.856339,0.508687,0.920586,0.237175,0.998009,0.118377,1,1,0.908858,0.468938,0.899131,0.832739,0.900822,0.904407,0.946794,0.276021,0.973782,0.885263,0.971352,0.655646,0.999422,0.781702,0.831385,0.0177378,0.88158,0.923303,0.918809,0.661138,0.936719,0.963947,0.721865,0.934618,0.994136,0.880229,0.999997,0.879144,0.990013,0.999141,0.872325,0.974528,0.110163,0.913042,0.148014,0.576565,0.02373,0.938977,1,0.953069,0.26641,0.937209,0.943786,0.929033,0.943312,0.991324,0.014192,0.366552,0.53867,0.525964,0.954136,0.917951,0.913469,0.980638,0.982743,0.999338,0.996164,0.996064,0.738683,0.87814,0.489965,0.757058,0.953127,0.999103,0.992328,0.999985,0.248251,0.915229,0.698651,0.851658,0.00571906,0.794695,0.739993,0.920076,0.980423,0.351624,0.670818,0.743785,1,0.53584,0.907519,0.890478,0.936635,0.981773,0.999989,0.999998,0.817837,0.999716,0.988828,0.872384,0.990062,1,0.99912,0.00401066,0.92005,0.918757,0.955994,0.733553,0.564363,0.353469,0.494771,0.031489,0.0236284,0.510125,0.967524,0.99995,0.92011,0.395515,0.198146,0.998734,0.821574,0.666125,0.465098,0.934356,0.284899,0.999999,1,0.84073,0.379711,0.773088,0.906373,0.38646,0.999913,0.998483,0.997907,0.415,0.00237979,0.944674,0.407335,0.985687,0.999624,0.707311,0.214078,0.412593,0.631916,0.638901,0.999993,0.917211,0.999997,0.822218,0.00453521,0.999956,0.516462,0.868234,0.999998,0.586092,0.999994,0.794861,0.999998,0.999966,1,0.72435,0.3457,0.18853,0.0774329,0.154544,0.991244,0.0745872,0.141132,7.44239e-05,0.278656,0.848988,0.00329915,0.390282,0.302971,0.915809,0.993133,0.706126,0.0440196,0.964773,0.756703,0.579981,0.671078,0.95227,0.884294,0.884467,0.89512,0.0175378,0.325709,0.163062,0.992339,0.00115986,0.989588,1,0.999171,0.000193777,0.750833,0.014113,0.837734,0.999467,0.853288,0.980504,0.981334,0.261485,0.999998,0.84743,0.798398,0.220229,0.998653,0.996759,0.0701075,0.932882,0.869104,0.998342,0.710986,0.841034,0.017835,0.442304,0.00518559,0.998412,0.0701595,0.234245,0.756879,0.0057318,0.000112683,0.120492,0.970639,0.25697,0.513035,0.402329,0.0399457,0.17908,0.0642892,0.00952264,0.125302,0.365082,0.722185,0.552661,0.423045,2.82728e-05,0.828906,0.437487,1.37583e-05,0.515294,0.226397,0.865676,0.707202,0.477301,0.985824,0.873791,0.800039,0.800958,0.552085,0.627713,0.485367,0.674706,0.409601,0.222919,0.327578,0.367145,0.0805283,0.255016,0.643767,0.00339663,0.0246145,0.12196,0.993725,0.724211,0.181918,0.0439895,0.795873,0.011291,0.233743,0.963715,0.968513,0.266813,0.128474,0.12297,0.0764419,0.709047,0.290212,0.0765299,0.494934,0.99009,0.692215,0.22465,0.874103,0.747625,0.167324,0.807552,0.000673304,0.71762,0.945616,0.385164,0.458868,0.801129,0.0583157,0.961746,0.984052,0.455454,0.784604,0.989312,0.86058,0.437431,0.907027,0.743695,0.984145,0.32901,0.845232,0.908213,0.497986,0.960433,0.752771,0.138505,0.805079,0.852365,0.432671,0.98821,0.657686,0.750519,0.542743,0.613488,0.238995,0.884692,0.912311,0.59481,0.278763,0.888341,0.934986,0.114628,0.285853,0.941883,0.572024,0.406691,0.999877,0.873774,0.861298,0.0458861,0.633406,0.0859858,0.55704,0.309262,0.231661,0.0032149,0.414513,0.158502,0.477827,0.675181,0.231842,0.120742,0.368182,0.965634,0.982477,0.993251,0.989177,0.912117,0.923843,0.900635,0.334014,0.87178,0.586705,0.992554,0.973838,0.0115026,0.391239,0.888837,0.930303,0.0165606,0.936092,0.885147,0.94918,0.998108,0.995262,0.200949,0.468719,0.758383,0.818297,0.765779,0.723359,0.724994,0.944322,0.725163,0.57369,0.922628,0.782862,0.74493,0.540107,0.744968,0.180332,0.184302,0.357157,0.856008,0.0135278,0.71811,0.95302,0.75132,0.82614,0.88149,0.880003,0.902323,0.617861,0.622354,0.0138679,0.823531,0.507476,0.0725384,0.363857,0.113289,0.830101,0.177851,0.183619,0.218586,0.0617768,0.00584256,0.670312,0.595536,0.888086,0.21416,0.453752,0.891302,0.297706,0.740453,0.0997301,0.0179051,0.875112,0.730402,0.820283,0.880619,0.291359,0.669104,0.308842,0.191722,0.368066,0.76634,0.679111,0.918004,0.511352,0.989457,0.0220253,0.407458,0.982635,0.990626,0.40294,0.839031,0.105295,0.958042,0.106822,0.445536,0.699713,0.725632,0.283506,0.289957,0.274513,0.686779,0.091732,0.624366,0.0508686
|tfbs_overrepresentation_for_novel_motifs=0.092803,0.127919,0.138853,0.403961,0.495713,0.0831579,0.0352194,0.587411,0.454221,0.0365957,0.309835,0.607681,0.00112714,0.157739,1.91395,0.475032,0.207859,0.0731553,0.537635,0.945085,0.746367,0.178171,0.0337881,2.13824,0.0473768,0.688848,0.0389768,0.0742265,0.0430121,0.401538,0.0881043,0.103432,0.00175283,0.214877,0.00893848,0.0742005,0.00109603,0.158239,2.62367,0.0245928,0.320515,0.0341861,1.46093,2.171,0.301625,0.00591731,0.175677,0.280726,0.504015,0.0217084,0.00441334,0.01182,0.00591345,0.0407798,0.305047,0.0803054,0.536864,0.119695,0.147383,0.0055255,0.131186,0.179174,0.570555,0.875746,0.0131362,0.0104246,0.409581,0.365062,0.736097,0.250059,0.0278788,0.407292,6.64696e-06,1.55515,3.79039e-05,0.0966306,2.59936,0.158985,0.236003,0.813391,0.29212,0.0668036,0.532334,0.113148,0.0709009,1.75343e-08,22.3495,0.361626,0.0958824,0.44253,0.180648,0.0617298,0.275777,4.78802,0.0205966,0.00349181,0.194322,0.144891,0.212862,0.0146155,0.412076,1.16505,0.0352122,0.0186636,0.269778,0.00762189,0.0163692,1.10778,0.0471949,0.000132958,0.0981045,0.324189,0.0410241,0.0282946,4.4116,1.20882,0.00568351,0.00550634,0.0508493,0.236696,1.02686,0.833479,1.25837,0.117281,1.82501,0.540361,0.164945,1.20811,0.696653,0.282632,1.76411,1.45908,0.111277,0.219392,0.188092,3.50368,0.684217,0.954637,0.164087,0.84061,0.48515,0.144243,0.167404,0.600419,0.272612,0.0515551,0.666903,0.695152,0.0684224,0.00498688,0.00143362,2.69294e-08,0.223091,0.172731,2.2674,0.27051,1.0717,0.553361,5.35611,0.000210892,0.441806,0.205748,0.724175,0.0626188,1.87568,0.754483,0.656513,0.461424,2.27414e-07
}}
}}

Revision as of 13:32, 26 November 2012


Full id: C131_lung_trachea_Alveolar_thyroid_umbilical_throat_skin



Phase1 CAGE Peaks

Hg19::chr10:24407319..24407323,-p@chr10:24407319..24407323
-
Hg19::chr10:24407447..24407471,+p@chr10:24407447..24407471
+
Hg19::chr10:97200772..97200774,-p@chr10:97200772..97200774
-
Hg19::chr11:12301789..12301797,+p@chr11:12301789..12301797
+
Hg19::chr11:128435202..128435212,+p@chr11:128435202..128435212
+
Hg19::chr11:128435216..128435219,+p@chr11:128435216..128435219
+
Hg19::chr11:19218255..19218267,+p1@ENST00000527978
Hg19::chr11:19218282..19218292,+p2@ENST00000527978
Hg19::chr11:19218311..19218319,+p3@ENST00000527978
Hg19::chr12:114843852..114843867,-p3@TBX5
Hg19::chr12:120151559..120151570,-p14@CIT
Hg19::chr12:9268819..9268829,-p10@A2M
Hg19::chr13:43321515..43321525,-p@chr13:43321515..43321525
-
Hg19::chr14:25479779..25479798,-p5@STXBP6
Hg19::chr14:36686942..36686967,-p@chr14:36686942..36686967
-
Hg19::chr14:36789763..36789774,-p3@MBIP
Hg19::chr14:36921583..36921586,+p@chr14:36921583..36921586
+
Hg19::chr14:36982998..36983015,-p5@SFTA3
Hg19::chr15:42565023..42565070,-p@chr15:42565023..42565070
-
Hg19::chr15:79286231..79286243,-p@chr15:79286231..79286243
-
Hg19::chr15:90542449..90542461,+p@chr15:90542449..90542461
+
Hg19::chr16:19404680..19404693,+p@chr16:19404680..19404693
+
Hg19::chr16:2379688..2379711,-p3@ABCA3
Hg19::chr16:53920795..53920815,+p3@FTO
Hg19::chr16:53920908..53920911,+p@chr16:53920908..53920911
+
Hg19::chr16:66167868..66167902,-p@chr16:66167868..66167902
-
Hg19::chr17:42923679..42923685,+p@chr17:42923679..42923685
+
Hg19::chr17:42923686..42923705,+p@chr17:42923686..42923705
+
Hg19::chr17:59479775..59479790,+p@chr17:59479775..59479790
+
Hg19::chr17:59529743..59529798,+p1@TBX4
Hg19::chr17:59533618..59533656,+p2@TBX4
Hg19::chr17:66539483..66539491,+p1@AK127041
Hg19::chr18:21242729..21242739,-p6@ANKRD29
Hg19::chr19:46800044..46800048,-p@chr19:46800044..46800048
-
Hg19::chr19:46800076..46800087,-p@chr19:46800076..46800087
-
Hg19::chr1:155972294..155972308,-p5@ENST00000454974
Hg19::chr1:155972346..155972351,-p3@ENST00000454974
Hg19::chr1:155972403..155972419,-p2@ENST00000454974
Hg19::chr1:170904671..170904677,+p4@C1orf129
Hg19::chr1:171157193..171157195,+p@chr1:171157193..171157195
+
Hg19::chr1:212241407..212241415,+p@chr1:212241407..212241415
+
Hg19::chr1:212241433..212241451,+p@chr1:212241433..212241451
+
Hg19::chr1:212241481..212241492,+p6@DTL
Hg19::chr1:242310809..242310817,+p@chr1:242310809..242310817
+
Hg19::chr1:39624527..39624560,+p@chr1:39624527..39624560
+
Hg19::chr1:61742889..61742902,+p@chr1:61742889..61742902
+
Hg19::chr1:62102759..62102782,+p@chr1:62102759..62102782
+
Hg19::chr20:41466192..41466207,-p@chr20:41466192..41466207
-
Hg19::chr20:41466212..41466225,-p@chr20:41466212..41466225
-
Hg19::chr20:45938947..45938951,-p@chr20:45938947..45938951
-
Hg19::chr20:58402101..58402106,+p@chr20:58402101..58402106
+
Hg19::chr2:100721923..100721930,-p16@AFF3
Hg19::chr2:167350586..167350598,-p6@SCN7A
Hg19::chr2:167350627..167350640,-p4@SCN7A
Hg19::chr2:167350641..167350689,-p1@SCN7A
Hg19::chr2:167350691..167350705,-p5@SCN7A
Hg19::chr2:167350710..167350728,-p3@SCN7A
Hg19::chr2:167350747..167350765,-p2@SCN7A
Hg19::chr2:173686338..173686351,+p8@RAPGEF4
Hg19::chr2:179184955..179185003,+p6@OSBPL6
Hg19::chr2:180426561..180426570,-p@chr2:180426561..180426570
-
Hg19::chr2:180426572..180426590,-p@chr2:180426572..180426590
-
Hg19::chr2:180426591..180426598,-p@chr2:180426591..180426598
-
Hg19::chr2:180427304..180427323,-p7@ZNF385B
Hg19::chr2:192214808..192214826,+p@chr2:192214808..192214826
+
Hg19::chr2:220131198..220131209,+p@chr2:220131198..220131209
+
Hg19::chr2:239478694..239478698,+p@chr2:239478694..239478698
+
Hg19::chr2:85893443..85893453,-p@chr2:85893443..85893453
-
Hg19::chr2:85893469..85893476,-p@chr2:85893469..85893476
-
Hg19::chr2:85893492..85893505,-p@chr2:85893492..85893505
-
Hg19::chr2:85893526..85893535,-p@chr2:85893526..85893535
-
Hg19::chr2:85893596..85893605,-p@chr2:85893596..85893605
-
Hg19::chr2:85893626..85893634,-p@chr2:85893626..85893634
-
Hg19::chr2:85893667..85893682,-p@chr2:85893667..85893682
-
Hg19::chr2:85893688..85893699,-p@chr2:85893688..85893699
-
Hg19::chr2:85893708..85893714,-p@chr2:85893708..85893714
-
Hg19::chr2:85893719..85893738,-p@chr2:85893719..85893738
-
Hg19::chr2:85893752..85893757,-p22@SFTPB
Hg19::chr2:85893907..85893914,-p16@SFTPB
Hg19::chr2:85894509..85894524,-p@chr2:85894509..85894524
-
Hg19::chr2:85894565..85894575,-p@chr2:85894565..85894575
-
Hg19::chr2:85894747..85894754,-p@chr2:85894747..85894754
-
Hg19::chr2:85894796..85894807,-p@chr2:85894796..85894807
-
Hg19::chr2:85894916..85894923,-p@chr2:85894916..85894923
-
Hg19::chr2:85894926..85894931,-p@chr2:85894926..85894931
-
Hg19::chr2:85895315..85895331,-p1@SFTPB
Hg19::chr3:137728947..137728952,+p6@CLDN18
Hg19::chr3:137728965..137728978,+p4@CLDN18
Hg19::chr3:137728985..137729022,+p1@CLDN18
Hg19::chr3:137729026..137729037,+p3@CLDN18
Hg19::chr3:137729095..137729097,+p10@CLDN18
Hg19::chr3:137729107..137729112,+p8@CLDN18
Hg19::chr3:150966861..150966873,-p6@P2RY14
Hg19::chr3:150966997..150967012,-p11@P2RY14
Hg19::chr3:151178921..151178926,-p@chr3:151178921..151178926
-
Hg19::chr3:193224569..193224573,+p@chr3:193224569..193224573
+
Hg19::chr3:44974953..44974981,-p12@ZDHHC3
Hg19::chr3:44975003..44975027,-p9@ZDHHC3
Hg19::chr3:74002015..74002023,-p@chr3:74002015..74002023
-
Hg19::chr4:152136458..152136467,-p@chr4:152136458..152136467
-
Hg19::chr4:189645023..189645058,-p@chr4:189645023..189645058
-
Hg19::chr4:41052963..41052979,-p@chr4:41052963..41052979
-
Hg19::chr4:62067299..62067303,+p24@LPHN3
Hg19::chr4:62067309..62067334,+p4@LPHN3
Hg19::chr4:89951028..89951062,-p20@FAM13A
Hg19::chr5:147258266..147258280,+p1@SCGB3A2
Hg19::chr5:58512790..58512799,-p@chr5:58512790..58512799
-
Hg19::chr5:59481406..59481413,-p97@PDE4D
Hg19::chr5:59481466..59481475,-p81@PDE4D
Hg19::chr5:59481477..59481489,-p54@PDE4D
Hg19::chr5:66786488..66786492,-p@chr5:66786488..66786492
-
Hg19::chr6:117746827..117746839,-p3@ROS1
Hg19::chr6:117746914..117746924,-p8@ROS1
Hg19::chr6:134210095..134210147,-p1@uc003qeg.1
Hg19::chr6:134212884..134212896,-p@chr6:134212884..134212896
-
Hg19::chr7:105603699..105603732,+p2@CDHR3
Hg19::chr7:105603738..105603753,+p4@CDHR3
Hg19::chr7:116165854..116165868,+p38@CAV1
Hg19::chr7:18329712..18329716,+p14@HDAC9
Hg19::chr7:22395904..22395928,+p@chr7:22395904..22395928
+
Hg19::chr7:24957750..24957761,-p8@OSBPL3
Hg19::chr7:37355939..37355973,-p@chr7:37355939..37355973
-
Hg19::chr7:80231640..80231661,+p5@CD36
Hg19::chr8:13017116..13017122,+p@chr8:13017116..13017122
+
Hg19::chr8:40019010..40019016,+p1@ENST00000520487
Hg19::chr8:55471739..55471763,+p2@RP1
Hg19::chr8:55471764..55471769,+p5@RP1
Hg19::chr8:55471773..55471782,+p4@RP1
Hg19::chr8:55471789..55471798,+p7@RP1
Hg19::chr9:112899329..112899346,+p37@AKAP2
Hg19::chr9:35237686..35237695,+p@chr9:35237686..35237695
+
Hg19::chr9:35237706..35237730,+p@chr9:35237706..35237730
+
Hg19::chr9:71926025..71926056,-p@chr9:71926025..71926056
-
Hg19::chr9:87493889..87493905,+p@chr9:87493889..87493905
+
Hg19::chrX:109003963..109003970,-p@chrX:109003963..109003970
-
Hg19::chrX:19649646..19649677,+p@chrX:19649646..19649677
+
Hg19::chrX:22050546..22050583,+p6@PHEX
Hg19::chrX:93977772..93977777,+p@chrX:93977772..93977777
+
Hg19::chrX:93977835..93977842,+p@chrX:93977835..93977842
+


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

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0030326embryonic limb morphogenesis0.000413190761542128
GO:0035113embryonic appendage morphogenesis0.000413190761542128
GO:0048736appendage development0.000413190761542128
GO:0060173limb development0.000413190761542128
GO:0035107appendage morphogenesis0.000413190761542128
GO:0035108limb morphogenesis0.000413190761542128
GO:0000267cell fraction0.000812130961869082
GO:0048598embryonic morphogenesis0.005005689993078
GO:0006869lipid transport0.0133524163256075
GO:0032501multicellular organismal process0.0133524163256075
GO:0005624membrane fraction0.0144859017243564
GO:0007275multicellular organismal development0.0257074453471486
GO:0035110leg morphogenesis0.0257074453471486
GO:0010037response to carbon dioxide0.0257074453471486
GO:0060044negative regulation of cardiac muscle cell proliferation0.0257074453471486
GO:0000173inactivation of MAPK activity during osmolarity sensing0.0257074453471486
GO:0060039pericardium development0.0257074453471486
GO:0000161MAPKKK cascade during osmolarity sensing0.0257074453471486
GO:0009790embryonic development0.0318752593228725
GO:0048856anatomical structure development0.0355797311796446
GO:0042599lamellar body0.0355797311796446
GO:0060043regulation of cardiac muscle cell proliferation0.0355797311796446
GO:0051890regulation of cardioblast differentiation0.0355797311796446
GO:0051891positive regulation of cardioblast differentiation0.0355797311796446
GO:0007231osmosensory signaling pathway0.0355797311796446
GO:0045029UDP-activated nucleotide receptor activity0.0355797311796446
GO:0009605response to external stimulus0.0420308275413828
GO:0048731system development0.0420308275413828
GO:0019959interleukin-8 binding0.0420308275413828
GO:0015065uridine nucleotide receptor activity0.0420308275413828
GO:0035117embryonic arm morphogenesis0.0420308275413828
GO:0035140arm morphogenesis0.0420308275413828
GO:0017114wide-spectrum protease inhibitor activity0.0420308275413828
GO:0048513organ development0.0462420086398967



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>


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
SUZ12#2351282.88436149128420.007034816120237180.029353142660066



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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