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pmid:30106394

The REMBRANDT study, a large collection of genomic data from brain cancer patients.

Yuriy Gusev · Krithika Bhuvaneshwar · Lei Song · Jean-Claude Zenklusen · Howard Fine · Subha Madhavan

Scientific data · 2018 doi:10.1038/sdata.2018.158

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title
The REMBRANDT study, a large collection of genomic data from brain cancer patients.
doi
10.1038/sdata.2018.158
pmid
30106394
authors array · 6 items
[0]
Yuriy Gusev
[1]
Krithika Bhuvaneshwar
[2]
Lei Song
[3]
Jean-Claude Zenklusen
[4]
Howard Fine
[5]
Subha Madhavan
journal
Scientific data
year
2018
abstract
The Rembrandt brain cancer dataset includes 671 patients collected from 14 contributing institutions from 2004-2006. It is accessible for conducting clinical translational research using the open access Georgetown Database of Cancer (G-DOC) platform. In addition, the raw and processed genomics and transcriptomics data have also been made available via the public NCBI GEO repository as a super series GSE108476. Such combined datasets would provide researchers with a unique opportunity to conduct integrative analysis of gene expression and copy number changes in patients alongside clinical outcomes (overall survival) using this large brain cancer study.
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Finally, the Kaplan Meier survival plot (Fig. 3c) feature in G-DOC Plus showed the expected result that patients with Astrocytoma had better survival rates than those with GBM with a p-value of less than 0.05 from log rank test.
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sections[10] "Case study using Rembrandt dataset in G-DOC" paragraph 2
quote
Finally, the Kaplan Meier survival plot (Fig. 3c) feature in G-DOC Plus showed the expected result that patients with Astrocytoma had better survival rates than those with GBM with a p-value of less than 0.05 from log rank test.
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The raw gene expression and copy number data are available in Gene Expression Omnibus (GEO) as a super series (Data Citation 1).
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sections[15] "Data Records" paragraph 2
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The raw gene expression and copy number data are available in Gene Expression Omnibus (GEO) as a super series (Data Citation 1).
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[509]
GSM2899687
[510]
GSM2899688
[511]
GSM2899689
[512]
GSM2899690
[513]
GSM2899691
[514]
GSM2899692
[515]
GSM2899693
[516]
GSM2899694
[517]
GSM2899695
[518]
GSM2899696
[519]
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[520]
GSM2899698
[521]
GSM2899699
[522]
GSM2899700
[523]
GSM2899701
[524]
GSM2899702
[525]
GSM2899703
[526]
GSM2899704
[527]
GSM2899705
[528]
GSM2899706
[529]
GSM2899707
[530]
GSM2899708
[531]
GSM2899709
[532]
GSM2899710
[533]
GSM2899711
[534]
GSM2899712
[535]
GSM2899713
[536]
GSM2899714
[537]
GSM2899715
[538]
GSM2899716
[539]
GSM2899717
[540]
GSM2899718
[541]
GSM2899719
[542]
GSM2899720
[543]
GSM2899721
[544]
GSM2899722
[545]
GSM2899723
[546]
GSM2899724
[547]
GSM2899725
[548]
GSM2899726
[549]
GSM2899727
[550]
GSM2899728
[551]
GSM2899729
[552]
GSM2899730
[553]
GSM2899731
[554]
GSM2899732
[555]
GSM2899733
[556]
GSM2899734
[557]
GSM2899735
[558]
GSM2899736
[559]
GSM2899737
[560]
GSM2899738
[561]
GSM2899739
[562]
GSM2899740
[563]
GSM2899741
[564]
GSM2899742
[565]
GSM2899743
[566]
GSM2899744
[567]
GSM2899745
[568]
GSM2899746
[569]
GSM2899747
[570]
GSM2899748
[571]
GSM2899749
[572]
GSM2899750
[573]
GSM2899751
[574]
GSM2899752
[575]
GSM2899753
[576]
GSM2899754
[577]
GSM2899755
[578]
GSM2899756
[579]
GSM2899757
[580]
GSM2899758
[581]
GSM2899759
[582]
GSM2899760
[583]
GSM2899761
[584]
GSM2899762
[585]
GSM2899763
[586]
GSM2899764
[587]
GSM2899765
[588]
GSM2899766
[589]
GSM2899767
[590]
GSM2899768
[591]
GSM2899769
[592]
GSM2899770
[593]
GSM2899771
[594]
GSM2899772
[595]
GSM2899773
[596]
GSM2899774
[597]
GSM2899775
[598]
GSM2899776
[599]
GSM2899777
[600]
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[601]
GSM2899779
[602]
GSM2899780
[603]
GSM2899781
[604]
GSM2899782
[605]
GSM2899783
[606]
GSM2899784
[607]
GSM2899785
[608]
GSM2899786
[609]
GSM2899787
[610]
GSM2899788
[611]
GSM2899789
[612]
GSM2899790
[613]
GSM2899791
[614]
GSM2899792
[615]
GSM2899793
[616]
GSM2899794
[617]
GSM2899795
[618]
GSM2899796
[619]
GSM2899797
[620]
GSM2899798
[621]
GSM2899799
[622]
GSM2899800
[623]
GSM2899801
[624]
GSM2899802
[625]
GSM2899803
[626]
GSM2899804
[627]
GSM2899805
[628]
GSM2899807
[629]
GSM2899808
[630]
GSM2899809
[631]
GSM2899810
[632]
GSM2899811
[633]
GSM2899812
[634]
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[635]
GSM2899814
[636]
GSM2899815
[637]
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[638]
GSM2899817
[639]
GSM2899818
[640]
GSM2899819
[641]
GSM2899820
[642]
GSM2899821
[643]
GSM2899822
[644]
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[645]
GSM2899824
[646]
GSM2899825
[647]
GSM2899826
[648]
GSM2899827
[649]
GSM2899828
[650]
GSM2899829
[651]
GSM2899830
[652]
GSM2899831
[653]
GSM2899832
[654]
GSM2899833
[655]
GSM2899834
[656]
GSM2899835
[657]
GSM2899836
[658]
GSM2899837
[659]
GSM2899838
[660]
GSM2899839
[661]
GSM2899840
[662]
GSM2899841
[663]
GSM2899842
[664]
GSM2899844
[665]
GSM2899845
[666]
GSM2899846
[667]
GSM2899847
[668]
GSM2899848
[669]
GSM2899849
[670]
GSM2899850
[671]
GSM2899851
[672]
GSM2899852
[673]
GSM2899853
[674]
GSM2899854
[675]
GSM2899855
[676]
GSM2899856
[677]
GSM2899857
[678]
GSM2899858
[679]
GSM2899859
[680]
GSM2899860
[681]
GSM2899861
[682]
GSM2899862
[683]
GSM2899863
[684]
GSM2899864
[685]
GSM2899865
[686]
GSM2899866
[687]
GSM2899867
[688]
GSM2899868
[689]
GSM2899869
[690]
GSM2899870
[691]
GSM2899871
[692]
GSM2899872
[693]
GSM2899873
[694]
GSM2899874
[695]
GSM2899875
[696]
GSM2899876
[697]
GSM2899877
[698]
GSM2899878
[699]
GSM2899879
[700]
GSM2899880
[701]
GSM2899882
[702]
GSM2899883
[703]
GSM2899884
[704]
GSM2899885
[705]
GSM2899886
[706]
GSM2899887
[707]
GSM2899888
[708]
GSM2899890
[709]
GSM2899891
[710]
GSM2899892
[711]
GSM2899893
[712]
GSM2899894
[713]
GSM2899895
[714]
GSM2899896
[715]
GSM2899897
[716]
GSM2899898
[717]
GSM2899899
[718]
GSM2899900
[719]
GSM2899901
[720]
GSM2899902
[721]
GSM2899903
[722]
GSM2899904
[723]
GSM2899905
[724]
GSM2899906
[725]
GSM2899907
[726]
GSM2899908
[727]
GSM2899909
[728]
GSM2899910
[729]
GSM2899911
[730]
GSM2899912
[731]
GSM2899913
[732]
GSM2899914
[733]
GSM2899915
[734]
GSM2899916
[735]
GSM2899917
[736]
GSM2899918
[737]
GSM2899919
[738]
GSM2899920
[739]
GSM2899921
[740]
GSM2899922
[741]
GSM2899923
[742]
GSM2899924
[743]
GSM2899925
[744]
GSM2899926
[745]
GSM2899927
[746]
GSM2899928
[747]
GSM2899929
[748]
GSM2899930
[749]
GSM2899931
[750]
GSM2899932
[751]
GSM2899933
[752]
GSM2899934
[753]
GSM2899935
[754]
GSM2899936
[755]
GSM2899937
[756]
GSM2899938
[757]
GSM2899939
[758]
GSM2899940
[759]
GSM2899941
[760]
GSM2899942
[761]
GSM2899943
[762]
GSM2899944
[763]
GSM2899945
[764]
GSM2899946
[765]
GSM2899947
[766]
GSM2899948
[767]
GSM2899949
[768]
GSM2899950
[769]
GSM2899951
[770]
GSM2899952
[771]
GSM2899953
[772]
GSM2899954
[773]
GSM2899955
[774]
GSM2899956
[775]
GSM2899957
[776]
GSM2899958
[777]
GSM2899959
[778]
GSM2899960
[779]
GSM2899961
[780]
GSM2899962
[781]
GSM2899964
[782]
GSM2899965
[783]
GSM2899966
[784]
GSM2899967
[785]
GSM2899968
[786]
GSM2899969
[787]
GSM2899970
[788]
GSM2899971
[789]
GSM2899972
[790]
GSM2899973
[791]
GSM2899974
[792]
GSM2899975
[793]
GSM2899976
[794]
GSM2899977
[795]
GSM2899978
[796]
GSM2899979
[797]
GSM2899980
[798]
GSM2899981
[799]
GSM2899982
[800]
GSM2899983
[801]
GSM2899984
[802]
GSM2899985
[803]
GSM2899986
[804]
GSM2899987
[805]
GSM2899988
[806]
GSM2899989
[807]
GSM2899990
[808]
GSM2899991
[809]
GSM2899992
[810]
GSM2899993
[811]
GSM2899994
[812]
GSM2899995
[813]
GSM2899996
[814]
GSM2899997
[815]
GSM2899998
[816]
GSM2899999
[817]
GSM2900000
[818]
GSM2900001
[819]
GSM2900002
[820]
GSM2900003
[821]
GSM2900004
[822]
GSM2900005
[823]
GSM2900006
[824]
GSM2900007
[825]
GSM2900008
[826]
GSM2900009
[827]
GSM2900010
[828]
GSM2900011
[829]
GSM2900012
[830]
GSM2900013
[831]
GSM2900014
[832]
GSM2900015
[833]
GSM2900016
[834]
GSM2900017
[835]
GSM2900018
[836]
GSM2900019
[837]
GSM2900020
[838]
GSM2900021
[839]
GSM2900022
[840]
GSM2900023
[841]
GSM2900024
[842]
GSM2900025
[843]
GSM2900026
[844]
GSM2900027
[845]
GSM2900028
[846]
GSM2900029
[847]
GSM2900030
[848]
GSM2900031
[849]
GSM2900032
[850]
GSM2900033
[851]
GSM2900034
[852]
GSM2900035
[853]
GSM2900036
[854]
GSM2900037
[855]
GSM2900038
[856]
GSM2900039
[857]
GSM2900040
[858]
GSM2900041
[859]
GSM2900042
[860]
GSM2900043
[861]
GSM2900044
[862]
GSM2900045
[863]
GSM2900046
[864]
GSM2900047
[865]
GSM2900048
[866]
GSM2900049
[867]
GSM2900050
[868]
GSM2900051
[869]
GSM2900052
[870]
GSM2900053
[871]
GSM2900055
[872]
GSM2900056
[873]
GSM2900057
[874]
GSM2900058
[875]
GSM2900059
[876]
GSM2900060
[877]
GSM2900061
[878]
GSM2900062
[879]
GSM2900063
[880]
GSM2900064
[881]
GSM2900065
[882]
GSM2900066
[883]
GSM2900067
[884]
GSM2900068
[885]
GSM2900069
[886]
GSM2900070
[887]
GSM2900071
[888]
GSM2900072
[889]
GSM2900073
[890]
GSM2900074
[891]
GSM2900075
[892]
GSM2900076
[893]
GSM2900077
[894]
GSM2900078
[895]
GSM2900079
[896]
GSM2900080
[897]
GSM2900081
[898]
GSM2900082
[899]
GSM2900083
[900]
GSM2900084
[901]
GSM2900085
[902]
GSM2900086
[903]
GSM2900087
[904]
GSM2900088
[905]
GSM2900089
[906]
GSM2900090
[907]
GSM2900091
[908]
GSM2900092
[909]
GSM2900093
[910]
GSM2900094
[911]
GSM2900095
[912]
GSM2900096
[913]
GSM2900098
[914]
GSM2900099
[915]
GSM2900100
[916]
GSM2900102
[917]
GSM2900103
[918]
GSM2900104
[919]
GSM2900105
[920]
GSM2900106
[921]
GSM2900107
[922]
GSM2900108
[923]
GSM2900109
[924]
GSM2900110
[925]
GSM2900111
[926]
GSM2900112
[927]
GSM2900113
[928]
GSM2900114
[929]
GSM2900115
[930]
GSM2900116
[931]
GSM2900117
[932]
GSM2900118
[933]
GSM2900119
[934]
GSM2900120
[935]
GSM2900121
[936]
GSM2900122
[937]
GSM2900123
[938]
GSM2900124
[939]
GSM2900125
[940]
GSM2900126
[941]
GSM2900127
[942]
GSM2900128
[943]
GSM2900129
[944]
GSM2900130
[945]
GSM2900131
[946]
GSM2900134
[947]
GSM2900135
[948]
GSM2900138
[949]
GSM2900139
[950]
GSM2900140
[951]
GSM2900141
[952]
GSM2900142
[953]
GSM2900143
[954]
GSM2900144
[955]
GSM2900145
[956]
GSM2900146
[957]
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[958]
GSM2900148
[959]
GSM2900149
[960]
GSM2900150
[961]
GSM2900151
[962]
GSM2900152
[963]
GSM2900153
[964]
GSM2900154
[965]
GSM2900155
[966]
GSM2900156
[967]
GSM2900157
[968]
GSM2900158
[969]
GSM2900159
[970]
GSM2900160
[971]
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[972]
GSM2900162
[973]
GSM2900163
[974]
GSM2900164
[975]
GSM2900165
[976]
GSM2900166
[977]
GSM2900167
[978]
GSM2900168
[979]
GSM2900169
[980]
GSM2900170
[981]
GSM2900171
[982]
GSM2900172
[983]
GSM2900173
[984]
GSM2900175
[985]
GSM2900176
[986]
GSM2900177
[987]
GSM2900178
[988]
GSM2900179
[989]
GSM2900180
[990]
GSM2900181
[991]
GSM2900182
[992]
GSM2900183
[993]
GSM2900184
[994]
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[995]
GSM2900186
[996]
GSM2900187
[997]
GSM2900188
[998]
GSM2900190
[999]
GSM2900191
[1000]
GSM2900192
[1001]
GSM2900193
[1002]
GSM2900195
[1003]
GSM2900196
[1004]
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[1005]
GSM2900198
[1006]
GSM2900199
[1007]
GSM2900200
[1008]
GSM2900202
[1009]
GSM2900203
[1010]
GSM2900204
[1011]
GSM2900205
[1012]
GSM2900206
[1013]
GSM2900207
[1014]
GSM2900208
[1015]
GSM2900209
[1016]
GSM2900211
[1017]
GSM2900212
[1018]
GSM2900213
[1019]
GSM2900214
[1020]
GSM2900215
[1021]
GSM2900216
[1022]
GSM2900217
[1023]
GSM2900218
[1024]
GSM2900219
[1025]
GSM2900220
[1026]
GSM2900221
[1027]
GSM2900222
[1028]
GSM2900223
[1029]
GSM2900224
[1030]
GSM2900225
[1031]
GSM2900226
[1032]
GSM2900227
[1033]
GSM2900228
[1034]
GSM2900229
[1035]
GSM2900230
[1036]
GSM2900231
[1037]
GSM2900232
[1038]
GSM2900233
[1039]
GSM2900234
[1040]
GSM2900235
[1041]
GSM2900236
[1042]
GSM2900237
[1043]
GSM2900238
[1044]
GSM2900239
[1045]
GSM2900240
[1046]
GSM2900241
[1047]
GSM2900242
[1048]
GSM2900243
[1049]
GSM2900244
[1050]
GSM2900245
[1051]
GSM2900246
[1052]
GSM2900247
[1053]
GSM2900248
[1054]
GSM2900249
[1055]
GSM2900250
[1056]
GSM2900251
[1057]
GSM2900252
[1058]
GSM2900253
[1059]
GSM2900254
[1060]
GSM2900255
[1061]
GSM2900256
[1062]
GSM2900257
[1063]
GSM2900258
[1064]
GSM2900259
[1065]
GSM2900260
[1066]
GSM2900261
[1067]
GSM2900262
[1068]
GSM2900263
[1069]
GSM2900264
[1070]
GSM2900265
[1071]
GSM2900266
[1072]
GSM2900267
[1073]
GSM2900268
[1074]
GSM2900269
[1075]
GSM2900270
[1076]
GSM2900271
[1077]
GSM2900272
[1078]
GSM2900274
[1079]
GSM2900275
[1080]
GSM2900276
[1081]
GSM2900278
[1082]
GSM2900279
[1083]
GSM2900280
[1084]
GSM2900281
[1085]
GSM2900282
[1086]
GSM2900283
[1087]
GSM2900285
[1088]
GSM2900286
[1089]
GSM2900287
[1090]
GSM2900288
[1091]
GSM2900289
[1092]
GSM2900290
[1093]
GSM2900291
[1094]
GSM2900292
[1095]
GSM2900293
[1096]
GSM2900294
[1097]
GSM2900295
[1098]
GSM2900296
[1099]
GSM2900297
[1100]
GSM2900298
[1101]
GSM2900300
[1102]
GSM2900301
[1103]
GSM2900302
[1104]
GSM2900303
[1105]
GSM2900304
[1106]
GSM2900306
[1107]
GSM2900307
[1108]
GSM2900308
[1109]
GSM2900309
[1110]
GSM2900310
[1111]
GSM2900311
[1112]
GSM2900312
[1113]
GSM2900313
[1114]
GSM2900314
[1115]
GSM2900315
[1116]
GSM2900316
[1117]
GSM2900317
[1118]
GSM2900318
[1119]
GSM2900319
[1120]
GSM2900320
[1121]
GSM2900321
[1122]
GSM2900322
[1123]
GSM2900323
[1124]
GSM2900324
[1125]
GSM2900325
[1126]
GSM2900326
[1127]
GSM2900327
[1128]
GSM2900328
[1129]
GSM2900329
[1130]
GSM2900330
[1131]
GSM2900331
[1132]
GSM2900332
[1133]
GSM2900333
[1134]
GSM2900334
[1135]
GSM2900335
[1136]
GSM2900336
[1137]
GSM2900337
[1138]
GSM2900338
[1139]
GSM2900339
[1140]
GSM2900340
[1141]
GSM2900341
[1142]
GSM2900342
[1143]
GSM2900343
[1144]
GSM2900344
[1145]
GSM2900345
[1146]
GSM2900346
[1147]
GSM2900347
[1148]
GSM2900348
[1149]
GSM2900349
[1150]
GSM2900350
[1151]
GSM2900351
[1152]
GSM2900352
[1153]
GSM2900353
[1154]
GSM2900354
[1155]
GSM2900355
[1156]
GSM2900356
[1157]
GSM2900358
[1158]
GSM2900359
[1159]
GSM2900360
[1160]
GSM2900361
[1161]
GSM2900362
[1162]
GSM2900363
[1163]
GSM2900364
[1164]
GSM2900365
[1165]
GSM2900366
[1166]
GSM2900367
[1167]
GSM2900368
[1168]
GSM2900369
[1169]
GSM2900370
[1170]
GSM2900371
[1171]
GSM2900372
[1172]
GSM2900373
[1173]
GSM2900374
[1174]
GSM2900375
[1175]
GSM2900376
[1176]
GSM2900378
[1177]
GSM2900379
[1178]
GSM2900380
[1179]
GSM2900381
[1180]
GSM2900382
[1181]
GSM2900383
[1182]
GSM2900384
[1183]
GSM2900385
[1184]
GSM2900387
[1185]
GSM2900388
[1186]
GSM2900389
[1187]
GSM2900390
[1188]
GSM2900391
[1189]
GSM2900392
[1190]
GSM2900393
[1191]
GSM2900394
[1192]
GSM2900395
[1193]
GSM2900396
[1194]
GSM2900397
[1195]
GSM2900398
[1196]
GSM2900399
[1197]
GSM2900400
[1198]
GSM2900401
[1199]
GSM2900402
[1200]
GSM2900403
[1201]
GSM2900404
[1202]
GSM2900405
[1203]
GSM2900406
[1204]
GSM2900407
[1205]
GSM2900408
[1206]
GSM2900409
[1207]
GSM2900410
[1208]
GSM2900411
[1209]
GSM2900412
[1210]
GSM2900413
[1211]
GSM2900414
[1212]
GSM2900415
[1213]
GSM2900416
[1214]
GSM2900417
[1215]
GSM2900418
[1216]
GSM2900419
[1217]
GSM2900420
[1218]
GSM2900421
[1219]
GSM2900422
[1220]
GSM2900423
[1221]
GSM2900424
[1222]
GSM2900425
[1223]
GSM2900426
[1224]
GSM2900427
[1225]
GSM2900428
[1226]
GSM2900429
[1227]
GSM2900430
[1228]
GSM2900431
[1229]
GSM2900432
[1230]
GSM2900433
[1231]
GSM2900434
[1232]
GSM2900435
[1233]
GSM2900436
[1234]
GSM2900437
[1235]
GSM2900438
[1236]
GSM2900439
[1237]
GSM2900440
[1238]
GSM2900441
[1239]
GSM2900442
[1240]
GSM2900443
[1241]
GSM2900444
[1242]
GSM2900445
[1243]
GSM2900446
[1244]
GSM2900447
[1245]
GSM2900448
[1246]
GSM2900449
[1247]
GSM2900450
[1248]
GSM2900451
[1249]
GSM2900452
[1250]
GSM2900453
[1251]
GSM2900455
[1252]
GSM2900456
[1253]
GSM2900457
[1254]
GSM2900458
[1255]
GSM2900460
[1256]
GSM2900461
[1257]
GSM2900462
[1258]
GSM2900463
[1259]
GSM2900464
[1260]
GSM2900465
[1261]
GSM2900466
[1262]
GSM2900467
[1263]
GSM2900468
[1264]
GSM2900469
[1265]
GSM2900470
[1266]
GSM2900471
[1267]
GSM2900472
[1268]
GSM2900474
[1269]
GSM2900475
[1270]
GSM2900476
[1271]
GSM2900477
[1272]
GSM2900478
[1273]
GSM2900479
[1274]
GSM2900480
[1275]
GSM2900481
[1276]
GSM2900482
[1277]
GSM2900483
[1278]
GSM2900484
[1279]
GSM2900485
[1280]
GSM2900486
[1281]
GSM2900487
[1282]
GSM2900488
[1283]
GSM2900489
[1284]
GSM2900490
[1285]
GSM2900491
[1286]
GSM2900492
[1287]
GSM2900493
[1288]
GSM2900494
[1289]
GSM2900495
[1290]
GSM2900496
[1291]
GSM2900497
[1292]
GSM2900498
[1293]
GSM2900499
[1294]
GSM2900500
[1295]
GSM2900501
[1296]
GSM2900502
[1297]
GSM2900503
[1298]
GSM2900504
[1299]
GSM2900505
[1300]
GSM2900506
[1301]
GSM2900507
[1302]
GSM2900508
[1303]
GSM2900509
[1304]
GSM2900510
[1305]
GSM2900511
[1306]
GSM2900512
[1307]
GSM2900513
[1308]
GSM2900514
[1309]
GSM2900515
[1310]
GSM2900516
[1311]
GSM2900517
[1312]
GSM2900518
[1313]
GSM2900519
[1314]
GSM2900520
[1315]
GSM2900521
[1316]
GSM2900522
[1317]
GSM2900523
[1318]
GSM2900524
[1319]
GSM2900526
[1320]
GSM2900527
[1321]
GSM2900528
[1322]
GSM2900529
[1323]
GSM2900530
[1324]
GSM2900531
[1325]
GSM2900532
[1326]
GSM2900533
[1327]
GSM2900534
[1328]
GSM2900535
[1329]
GSM2900536
[1330]
GSM2900538
[1331]
GSM2900539
[1332]
GSM2900540
[1333]
GSM2900541
[1334]
GSM2900542
[1335]
GSM2900543
[1336]
GSM2900544
[1337]
GSM2900545
[1338]
GSM2900546
[1339]
GSM2900547
[1340]
GSM2900548
[1341]
GSM2900549
[1342]
GSM2900550
[1343]
GSM2900551
[1344]
GSM2900552
[1345]
GSM2900553
[1346]
GSM2900554
[1347]
GSM2900555
[1348]
GSM2900556
[1349]
GSM2900557
[1350]
GSM2900558
[1351]
GSM2900559
[1352]
GSM2900560
[1353]
GSM2900561
[1354]
GSM2900562
[1355]
GSM2900563
[1356]
GSM2900564
[1357]
GSM2900565
[1358]
GSM2900566
[1359]
GSM2900567
[1360]
GSM2900568
[1361]
GSM2900569
[1362]
GSM2900570
[1363]
GSM2900571
[1364]
GSM2900572
[1365]
GSM2900573
[1366]
GSM2900574
[1367]
GSM2900575
[1368]
GSM2900576
[1369]
GSM2900577
[1370]
GSM2900578
[1371]
GSM2900579
[1372]
GSM2900580
[1373]
GSM2900581
[1374]
GSM2900582
[1375]
GSM2900583
[1376]
GSM2900584
[1377]
GSM2900585
[1378]
GSM2900586
[1379]
GSM2900587
[1380]
GSM2900588
[1381]
GSM2900589
[1382]
GSM2900590
[1383]
GSM2900591
[1384]
GSM2900592
[1385]
GSM2900593
[1386]
GSM2900594
[1387]
GSM2900595
[1388]
GSM2900596
[1389]
GSM2900597
[1390]
GSM2900598
[1391]
GSM2900599
[1392]
GSM2900600
[1393]
GSM2900601
[1394]
GSM2900602
[1395]
GSM2900603
[1396]
GSM2900604
[1397]
GSM2900605
[1398]
GSM2900606
[1399]
GSM2900607
[1400]
GSM2900609
[1401]
GSM2900610
[1402]
GSM2900611
[1403]
GSM2900612
[1404]
GSM2900613
[1405]
GSM2900614
[1406]
GSM2900615
[1407]
GSM2900616
[1408]
GSM2900617
[1409]
GSM2900618
[1410]
GSM2900619
[1411]
GSM2900620
[1412]
GSM2900621
[1413]
GSM2900622
[1414]
GSM2900623
[1415]
GSM2900624
[1416]
GSM2900625
[1417]
GSM2900626
[1418]
GSM2900627
[1419]
GSM2900628
[1420]
GSM2900629
[1421]
GSM2900630
[1422]
GSM2900631
[1423]
GSM2900632
[1424]
GSM2900633
[1425]
GSM2900634
[1426]
GSM2900635
[1427]
GSM2900636
[1428]
GSM2900637
[1429]
GSM2900638
[1430]
GSM2900639
[1431]
GSM2900640
[1432]
GSM2900641
[1433]
GSM2900642
[1434]
GSM2900643
[1435]
GSM2900644
[1436]
GSM2900645
[1437]
GSM2900646
[1438]
GSM2900647
[1439]
GSM2900648
[1440]
GSM2900649
[1441]
GSM2900650
[1442]
GSM2900651
[1443]
GSM2900652
[1444]
GSM2900653
[1445]
GSM2900654
[1446]
GSM2900655
[1447]
GSM2900656
[1448]
GSM2900657
[1449]
GSM2900658
[1450]
GSM2900659
[1451]
GSM2900660
[1452]
GSM2900661
[1453]
GSM2900662
[1454]
GSM2900664
[1455]
GSM2900665
[1456]
GSM2900666
[1457]
GSM2900667
[1458]
GSM2900668
[1459]
GSM2900669
[1460]
GSM2900670
[1461]
GSM2900671
[1462]
GSM2900672
[1463]
GSM2900673
[1464]
GSM2900674
[1465]
GSM2900675
[1466]
GSM2900676
[1467]
GSM2900677
[1468]
GSM2900678
[1469]
GSM2900679
[1470]
GSM2900680
[1471]
GSM2900681
[1472]
GSM2900682
[1473]
GSM2900683
[1474]
GSM2900684
[1475]
GSM2900685
[1476]
GSM2900686
[1477]
GSM2900687
[1478]
GSM2900688
[1479]
GSM2900689
[1480]
GSM2900690
[1481]
GSM2900692
[1482]
GSM2900693
[1483]
GSM2900694
[1484]
GSM2900695
[1485]
GSM2900696
[1486]
GSM2900697
[1487]
GSM2900698
[1488]
GSM2900700
[1489]
GSM2900701
[1490]
GSM2900702
[1491]
GSM2900703
[1492]
GSM2900704
[1493]
GSM2900705
[1494]
GSM2900706
[1495]
GSM2900707
[1496]
GSM2900708
[1497]
GSM2900709
[1498]
GSM2900710
[1499]
GSM2900711
[1500]
GSM2900714
[1501]
GSM2900715
[1502]
GSM2900716
[1503]
GSM2900717
[1504]
GSM2900718
[1505]
GSM2900719
[1506]
GSM2900720
[1507]
GSM2900721
[1508]
GSM2900722
[1509]
GSM2900723
[1510]
GSM2900724
[1511]
GSM2900725
[1512]
GSM2900726
[1513]
GSM2900727
[1514]
GSM2900728
[1515]
GSM2900729
[1516]
GSM2900730
[1517]
GSM2900731
[1518]
GSM2900733
[1519]
GSM2900734
[1520]
GSM2900735
[1521]
GSM2900736
[1522]
GSM2900737
[1523]
GSM2900738
[1524]
GSM2900739
[1525]
GSM2900740
[1526]
GSM2900741
[1527]
GSM2900742
[1528]
GSM2900743
[1529]
GSM2900745
[1530]
GSM2900746
[1531]
GSM2900747
[1532]
GSM2900748
[1533]
GSM2900749
[1534]
GSM2900750
[1535]
GSM2900751
[1536]
GSM2900752
[1537]
GSM2900753
[1538]
GSM2900754
[1539]
GSM2900755
[1540]
GSM2900756
[1541]
GSM2900757
[1542]
GSM2900758
[1543]
GSM2900759
[1544]
GSM2900760
[1545]
GSM2900761
[1546]
GSM2900762
[1547]
GSM2900763
[1548]
GSM2900764
[1549]
GSM2900765
[1550]
GSM2900766
[1551]
GSM2900767
[1552]
GSM2900768
[1553]
GSM2900769
[1554]
GSM2900770
[1555]
GSM2900771
[1556]
GSM2900772
[1557]
GSM2900773
[1558]
GSM2900774
[1559]
GSM2900775
[1560]
GSM2900776
[1561]
GSM2900777
[1562]
GSM2900778
[1563]
GSM2900779
[1564]
GSM2900780
[1565]
GSM2900781
[1566]
GSM2900782
[1567]
GSM2900783
[1568]
GSM2900784
[1569]
GSM2900785
[1570]
GSM2900786
[1571]
GSM2900787
[1572]
GSM2900788
[1573]
GSM2900789
[1574]
GSM2900790
[1575]
GSM2900791
[1576]
GSM2900792
[1577]
GSM2900793
[1578]
GSM2900794
[1579]
GSM2900795
[1580]
GSM2900796
[1581]
GSM2900797
[1582]
GSM2900798
[1583]
GSM2900799
[1584]
GSM2900800
[1585]
GSM2900801
[1586]
GSM2900802
[1587]
GSM2900803
[1588]
GSM2900804
[1589]
GSM2900805
[1590]
GSM2900806
[1591]
GSM2900809
[1592]
GSM2900810
[1593]
GSM2900811
[1594]
GSM2900812
[1595]
GSM2900813
[1596]
GSM2900814
[1597]
GSM2900815
[1598]
GSM2900816
[1599]
GSM2900817
[1600]
GSM2900818
[1601]
GSM2900819
[1602]
GSM2900820
[1603]
GSM2900821
[1604]
GSM2900822
[1605]
GSM2900823
[1606]
GSM2900824
[1607]
GSM2900825
[1608]
GSM2900826
[1609]
GSM2900827
[1610]
GSM2900828
[1611]
GSM2900829
[1612]
GSM2900830
[1613]
GSM2900831
[1614]
GSM2900832
[1615]
GSM2900833
[1616]
GSM2900834
[1617]
GSM2900835
[1618]
GSM2900836
[1619]
GSM2900837
[1620]
GSM2900838
[1621]
GSM2900839
[1622]
GSM2900840
[1623]
GSM2900841
[1624]
GSM2900842
[1625]
GSM2900843
[1626]
GSM2900844
[1627]
GSM2900845
[1628]
GSM2900846
[1629]
GSM2900847
[1630]
GSM2900848
[1631]
GSM2900849
[1632]
GSM2900850
[1633]
GSM2900851
[1634]
GSM2900852
[1635]
GSM2900853
[1636]
GSM2900854
[1637]
GSM2900855
[1638]
GSM2900856
[1639]
GSM2900857
[1640]
GSM2900858
[1641]
GSM2900859
[1642]
GSM2900860
[1643]
GSM2900861
[1644]
GSM2900862
[1645]
GSM2900863
[1646]
GSM2900864
[1647]
GSM2900865
[1648]
GSM2900866
[1649]
GSM2900867
[1650]
GSM2900868
[1651]
GSM2900869
[1652]
GSM2900870
[1653]
GSM2900871
[1654]
GSM2900872
[1655]
GSM2900873
[1656]
GSM2900874
[1657]
GSM2900875
[1658]
GSM2900876
[1659]
GSM2900877
[1660]
GSM2900878
[1661]
GSM2900879
[1662]
GSM2900880
[1663]
GSM2900881
[1664]
GSM2900882
[1665]
GSM2900883
[1666]
GSM2900884
[1667]
GSM2900885
[1668]
GSM2900887
[1669]
GSM2900888
[1670]
GSM2900889
[1671]
GSM2900890
[1672]
GSM2900891
[1673]
GSM2900892
[1674]
GSM2900893
[1675]
GSM2900895
[1676]
GSM2900896
[1677]
GSM2900897
[1678]
GSM2900898
[1679]
GSM2900899
[1680]
GSM2900900
[1681]
GSM2900901
[1682]
GSM2900902
[1683]
GSM2900903
[1684]
GSM2900904
[1685]
GSM2900905
[1686]
GSM2900906
[1687]
GSM2900907
[1688]
GSM2900909
[1689]
GSM2900910
[1690]
GSM2900911
[1691]
GSM2900912
[1692]
GSM2900913
[1693]
GSM2900914
[1694]
GSM2900915
[1695]
GSM2900916
[1696]
GSM2900917
[1697]
GSM2900919
[1698]
GSM2900920
[1699]
GSM2900921
[1700]
GSM2900922
[1701]
GSM2900923
[1702]
GSM2900924
[1703]
GSM2900925
[1704]
GSM2900927
[1705]
GSM2900928
[1706]
GSM2900929
[1707]
GSM2900930
[1708]
GSM2900931
[1709]
GSM2900932
[1710]
GSM2900933
[1711]
GSM2900934
[1712]
GSM2900935
[1713]
GSM2900936
[1714]
GSM2900937
[1715]
GSM2900938
[1716]
GSM2900939
[1717]
GSM2900940
[1718]
GSM2900941
[1719]
GSM2900942
[1720]
GSM2900943
[1721]
GSM2900944
[1722]
GSM2900945
[1723]
GSM2900947
[1724]
GSM2900948
[1725]
GSM2900949
[1726]
GSM2900950
[1727]
GSM2900951
[1728]
GSM2900952
[1729]
GSM2900953
[1730]
GSM2900954
[1731]
GSM2900956
[1732]
GSM2900957
[1733]
GSM2900958
[1734]
GSM2900960
[1735]
GSM2900961
[1736]
GSM2900962
[1737]
GSM2900963
[1738]
GSM2900964
[1739]
GSM2900965
[1740]
GSM2900966
[1741]
GSM2900967
[1742]
GSM2900969
[1743]
GSM2900970
[1744]
GSM2900974
[1745]
GSM2900975
[1746]
GSM2900976
[1747]
GSM2900977
[1748]
GSM2900978
[1749]
GSM2900979
[1750]
GSM2900980
[1751]
GSM2900981
[1752]
GSM2900982
[1753]
GSM2900983
[1754]
GSM2900984
[1755]
GSM2900986
[1756]
GSM2900987
[1757]
GSM2900988
[1758]
GSM2900989
[1759]
GSM2900990
[1760]
GSM2900991
[1761]
GSM2900992
[1762]
GSM2900993
[1763]
GSM2900994
[1764]
GSM2900995
[1765]
GSM2900996
[1766]
GSM2900997
[1767]
GSM2900998
[1768]
GSM2900999
[1769]
GSM2901000
[1770]
GSM2901001
[1771]
GSM2901002
[1772]
GSM2901003
[1773]
GSM2901004
[1774]
GSM2901005
[1775]
GSM2901006
[1776]
GSM2901007
[1777]
GSM2901008
[1778]
GSM2901009
[1779]
GSM2901010
[1780]
GSM2901011
[1781]
GSM2901012
[1782]
GSM2901013
[1783]
GSM2901014
[1784]
GSM2901015
[1785]
GSM2901016
[1786]
GSM2901017
[1787]
GSM2901018
[1788]
GSM2901019
[1789]
GSM2901020
[1790]
GSM2901021
[1791]
GSM2901022
[1792]
GSM2901023
[1793]
GSM2901024
[1794]
GSM2901025
[1795]
GSM2901026
[1796]
GSM2901027
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[1926]
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[1934]
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[1936]
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[1937]
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[1939]
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[1940]
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[1941]
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[1967]
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[1968]
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[1969]
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[1970]
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[1971]
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[1972]
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[1973]
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[1974]
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[1975]
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[1976]
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[1977]
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[1978]
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[1979]
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[1980]
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[1981]
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[1982]
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[1983]
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[1984]
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[1985]
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[1986]
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[1987]
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[1988]
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[1990]
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[1998]
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[2001]
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[2013]
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[2014]
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[2015]
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[2016]
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[2017]
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[2018]
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[2019]
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[2020]
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[2021]
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[2022]
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[2023]
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sample_count
2056
group_sizes
null
group_sizes_basis
null
platform
2004;570;2005
taxon
Homo sapiens
title
The REMBRANDT study – a large collection of genomic data from brain cancer patients
resolution_checked_at
2026-11-01T15:39:54Z
resolution_check
identifier_resolution_only_no_download_no_licence_read
downloaded
false
licence_read
false
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asset:table:pmid:30106394:1
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sha256:b0e6c6e2c9e8dc429cb99f5220f21315fc924dc13f894b812f0d7d7661553333
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available
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section[9]/table-wrap[1]#t1
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null
note
Details of the REMBRANDT dataset in G-DOC.
structure object · 5 fields
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PMC6091243
section_index
9
section_title
Data processing for G-DOC
row_count
3
column_count
5
table object · 8 fields
label
Table 1
caption
Details of the REMBRANDT dataset in G-DOC.
rows array · 3 items
[0] array · 5 items
[0]
Source
[1]
Protocol 1
[2]
Samples
[3]
Protocol 2
[4]
Data
[1] array · 5 items
[0]
Rembrandt glioma samples
[1]
RNA extraction
[2]
671 patients
[3]
Microarray hybridization
[4]
GSE108474
[2] array · 5 items
[0]
Rembrandt glioma samples
[1]
DNA extraction
[2]
263 patients
[3]
SNP array hybridization
[4]
GSE108475
locator
section[9]/table-wrap[1]#t1
[3] object · 16 fields
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asset:table:pmid:30106394:2
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jats-table
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application/vnd.jats.table+json
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null
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sha256:6530429b2db891b25555f362def65aaa9ec8bd5e633122114d5e1688eeabc6ba
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935
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open
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verified
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read_table
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available
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section[9]/table-wrap[2]#t2
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null
note
Summary of the Rembrandt dataset.
structure object · 5 fields
pmcid
PMC6091243
section_index
9
section_title
Data processing for G-DOC
row_count
25
column_count
4
table object · 8 fields
label
Table 2
caption
Summary of the Rembrandt dataset.
rows array · 25 items
[0] array · 4 items
[0]
[1]
Clinical Attribute
[2]
Number of patients
[3]
% Of patients
[1] array · 4 items
[0]
Gender
[1]
Male
[2]
326
[3]
48.6%
[2] array · 4 items
[0]
[1]
Female
[2]
177
[3]
26.4%
[3] array · 4 items
[0]
[1]
Blank/NA
[2]
168
[3]
25.0%
[4] array · 4 items
[0]
Disease Type
[1]
GBM
[2]
261
[3]
38.9%
[5] array · 4 items
[0]
[1]
Astrocytoma
[2]
170
[3]
25.3%
[6] array · 4 items
[0]
[1]
Oligodendroglioma
[2]
86
[3]
12.8%
[7] array · 4 items
[0]
[1]
Non tumor
[2]
31
[3]
4.6%
[8] array · 4 items
[0]
[1]
Unknown
[2]
68
[3]
10.1%
[9] array · 4 items
[0]
[1]
Unclassified
[2]
1
[3]
0.1%
[10] array · 4 items
[0]
[1]
Mixed
[2]
13
[3]
1.9%
[11] array · 4 items
[0]
[1]
Blank/NA
[2]
41
[3]
6.1%
[12] array · 4 items
[0]
WHO Grade
[1]
I
[2]
2
[3]
0.3%
[13] array · 4 items
[0]
[1]
II
[2]
110
[3]
16.4%
[14] array · 4 items
[0]
[1]
III
[2]
93
[3]
13.9%
[15] array · 4 items
[0]
[1]
IV
[2]
140
[3]
20.9%
[16] array · 4 items
[0]
[1]
Blank/NA
[2]
326
[3]
48.6%
[17] array · 4 items
[0]
Race
[1]
White
[2]
433
[3]
64.5%
[18] array · 4 items
[0]
[1]
Black
[2]
15
[3]
2.2%
[19] array · 4 items
[0]
[1]
Asian
[2]
7
[3]
1.0%
[20] array · 4 items
[0]
[1]
Hispanic
[2]
1
[3]
0.1%
[21] array · 4 items
[0]
[1]
Native Hawaiian
[2]
3
[3]
0.4%
[22] array · 4 items
[0]
[1]
Unknown
[2]
7
[3]
1.0%
[23] array · 4 items
[0]
[1]
Other
[2]
5
[3]
0.7%
[24] array · 4 items
[0]
[1]
Blank/NA
[2]
200
[3]
29.8%
locator
section[9]/table-wrap[2]#t2
gaps array · 2 items
[0]
asset:data:geo:GSE108476 not downloaded
[1]
asset:data:geo:GSE108476 licence not read
analysis object · 4 fields
state
complete
methods array · 2 items
[0] object · 10 fields
id
method-1
family
survival_analysis
specific
log_rank_test
label
Survival analysis
dsl_operations array · 1 item
[0]
logrank_test
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
time_to_event_with_censoring
evidence object · 3 fields
score
1
band
verbatim
quote
Finally, the Kaplan Meier survival plot (Fig. 3c) feature in G-DOC Plus showed the expected result that patients with Astrocytoma had better survival rates than those with GBM with a p-value of less than 0.05 from log rank test.
[1] object · 10 fields
id
method-2
family
survival_analysis
specific
kaplan_meier
label
Survival analysis
dsl_operations array · 1 item
[0]
survival_km
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
time_to_event_with_censoring
evidence object · 3 fields
score
0.8
band
high
quote
Kaplan Meier
targets array · 0 items
gaps array · 0 items
capability object · 3 fields
state
complete
requirements array · 1 item
[0] object · 6 fields
capability_id
capability:computational_analysis
label
Computational analysis platform
assay_families array · 9 items
[0]
meta_analysis
[1]
machine_learning
[2]
survival_analysis
[3]
statistical_regression
[4]
pca
[5]
molecular_docking
[6]
network_analysis
[7]
differential_expression
[8]
gwas
candidate
Automated Assays Laravel application and simulated adapters
gaps array · 0 items
readiness object · 8 fields
state
complete
tier
R1
blocked_on
nothing:replicable_now
axes object · 3 fields
method object · 5 fields
tier
R1
expressible
true
required_operations array · 1 item
[0]
logrank_test
missing_operations array · 0 items
basis
The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: log_rank_test.
capability object · 4 fields
tier
R1
capability_id
capability:computational_analysis
availability_state
owned
basis
The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here.
data object · 6 fields
tier
R1
reachable
true
accessions array · 1 item
[0]
GSE108476
resolved_accessions array · 1 item
[0]
GSE108476
statements array · 1 item
[0]
The raw gene expression and copy number data are available in Gene Expression Omnibus (GEO) as a super series (Data Citation 1).
basis
The paper names GSE108476 in National Center for Biotechnology Information Gene Expression Omnibus (NCBI GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read.
can_run object · 3 fields
dsl_operations array · 1 item
[0]
logrank_test
assets array · 4 items
[0]
source:pmid:30106394
[1]
data:geo:GSE108476
[2]
asset:table:pmid:30106394:1
[3]
asset:table:pmid:30106394:2
steps array · 1 item
[0]
run_analysis
must_build object · 5 fields
dsl_operations array · 0 items
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readers array · 0 items
capabilities array · 0 items
data_gaps array · 1 item
[0]
data:geo:GSE108476
gaps array · 0 items
review object · 5 fields
state
partial
machine_critique object · 5 fields
kind
extraction_review
reader object · 5 fields
model
MiniMax-M3.1-Flash
provider
minimax
provider_family
minimax
read_at
2026-10-31T18:12:26Z
independence
single_reader
evidence_check object · 2 fields
method
verbatim
availability
verbatim
calls
3
usage object · 3 fields
prompt_tokens
18932
completion_tokens
2190
cached_tokens
6400
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[0] object · 4 fields
id
extraction
state
complete
reader
MiniMax-M3.1-Flash
provider
minimax
gaps array · 3 items
[0]
review.independent_reader
[1]
review.machine_critique
[2]
review.human_critique
execution object · 5 fields
state
absent
status
not_run
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null
runs array · 0 items
gaps array · 1 item
[0]
execution.not_run
provenance object · 7 fields
entities array · 3 items
[0] object · 3 fields
id
pmid:30106394
type
paper
label
pmid:30106394
[1] object · 3 fields
id
source:pmid:30106394
type
manuscript
label
PMID 30106394 full text
[2] object · 3 fields
id
data:geo:GSE108476
type
dataset
label
GEO GSE108476
activities array · 3 items
[0] object · 4 fields
id
activity-reading-sci-2026-11-01
type
classification
used array · 3 items
[0] object · 3 fields
id
pmid:30106394
type
paper
label
pmid:30106394
[1] object · 3 fields
id
source:pmid:30106394
type
manuscript
label
PMID 30106394 full text
[2] object · 3 fields
id
data:geo:GSE108476
type
dataset
label
GEO GSE108476
agent
agent:corpus-assay-engine
[1] object · 4 fields
id
activity-read-30106394
type
extraction
used array · 1 item
[0]
source:pmid:30106394
agent
agent:minimax-reader
[2] object · 4 fields
id
activity-resolve-GSE108476
type
accession_resolution
used array · 1 item
[0]
data:geo:GSE108476
agent
agent:corpus-assay-engine
agents array · 2 items
[0] object · 3 fields
id
agent:corpus-assay-engine
type
software
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Corpus assay engine
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id
agent:minimax-reader
type
software
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MiniMax literature reader
source_run_id
reading-sci-2026-11-01
dsl_catalogue_fingerprint
343fb30756ba6ec3
capability_table_fingerprint
2cb3e42f047d2ecf
snapshot_id
ba34b49490d9bfaf
lineage object · 4 fields
parent_id
pmid:30106394
parent_hash
sha256:f7d8ba09a6f9c1e178c0aaa967bbe756194ec9fca755305b9aecb67238ecbe28
fork_of
null
gaps array · 6 items
[0]
asset:data:geo:GSE108476 licence not read
[1]
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[2]
execution.not_run
[3]
review.human_critique
[4]
review.independent_reader
[5]
review.machine_critique
assays array · 2 items
[0] object · 11 fields
role
data_generation
definition_id
microarray
definition_version
99e1195c7d6f
required_operations array · 0 items
support_state
partial
source_hashes object · 1 field
assay_lexicon
99e1195c7d6f
confidence
0.99
evidence array · 4 items
[0]
ng the Affymetrix U133 Plus2 gene expression microarray chips1. DNA samples Tissue (∼10 μg; as recom
[1]
ted from each sample was processed using the Affymetrix U133 Plus2 gene expression microarray chips1
[2]
le nucleotide polymorphism chips (http://www.affymetrix.com/support/technical/byproduct.affx?product
[3]
Calls were determined by the GTYPE software (Affymetrix Inc, Santa Clara) version 3.0 with 25% level
order_basis
paper_text_order:1822
id
assay:1
[1] object · 11 fields
role
analysis
definition_id
survival_analysis
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f2132e96ae6c7a4e
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[0]
logrank_test
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supported
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dsl_catalogue
f2132e96ae6c7a4e
evidence array · 1 item
[0]
Finally, the Kaplan Meier survival plot (Fig. 3c) feature in G-DOC Plus showed the expected result that patients with Astrocytoma had better survival rates than those with GBM with a p-value of less than 0.05 from log rank test.
order_basis
consumes_earlier_output
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assay:2
Complete file
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It is accessible for conducting clinical translational research using the open access Georgetown Database of Cancer (G-DOC) platform. In addition, the raw and processed genomics and transcriptomics data have also been made available via the public NCBI GEO repository as a super series GSE108476. Such combined datasets would provide researchers with a unique opportunity to conduct integrative analysis of gene expression and copy number changes in patients alongside clinical outcomes (overall survival) using this large brain cancer study.", "claims": [{"id": "claim-method", "statement": "Finally, the Kaplan Meier survival plot (Fig. 3c) feature in G-DOC Plus showed the expected result that patients with Astrocytoma had better survival rates than those with GBM with a p-value of less than 0.05 from log rank test.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30106394", "locator": "sections[10] \"Case study using Rembrandt dataset in G-DOC\" paragraph 2", "quote": "Finally, the Kaplan Meier survival plot (Fig. 3c) feature in G-DOC Plus showed the expected result that patients with Astrocytoma had better survival rates than those with GBM with a p-value of less than 0.05 from log rank test."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The raw gene expression and copy number data are available in Gene Expression Omnibus (GEO) as a super series (Data Citation 1).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30106394", "locator": "sections[15] \"Data Records\" paragraph 2", "quote": "The raw gene expression and copy number data are available in Gene Expression Omnibus (GEO) as a super series (Data Citation 1)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:30106394"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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"GSM2900902", "GSM2900903", "GSM2900904", "GSM2900905", "GSM2900906", "GSM2900907", "GSM2900909", "GSM2900910", "GSM2900911", "GSM2900912", "GSM2900913", "GSM2900914", "GSM2900915", "GSM2900916", "GSM2900917", "GSM2900919", "GSM2900920", "GSM2900921", "GSM2900922", "GSM2900923", "GSM2900924", "GSM2900925", "GSM2900927", "GSM2900928", "GSM2900929", "GSM2900930", "GSM2900931", "GSM2900932", "GSM2900933", "GSM2900934", "GSM2900935", "GSM2900936", "GSM2900937", "GSM2900938", "GSM2900939", "GSM2900940", "GSM2900941", "GSM2900942", "GSM2900943", "GSM2900944", "GSM2900945", "GSM2900947", "GSM2900948", "GSM2900949", "GSM2900950", "GSM2900951", "GSM2900952", "GSM2900953", "GSM2900954", "GSM2900956", "GSM2900957", "GSM2900958", "GSM2900960", "GSM2900961", "GSM2900962", "GSM2900963", "GSM2900964", "GSM2900965", "GSM2900966", "GSM2900967", "GSM2900969", "GSM2900970", "GSM2900974", "GSM2900975", "GSM2900976", "GSM2900977", "GSM2900978", "GSM2900979", "GSM2900980", "GSM2900981", "GSM2900982", 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