Table 2.

Detailed Subtype Prediction for the 100 Runs Using McMaster Sample Cohort. PDX: Patient-derived Xenograft

Patient ID	Sample Type	Classical	Mesenchymal	Proneural	Subtype Prediction
BT241	Cell Line	1	99	0	Mesenchymal
BT241	PDX	1	99	0	Mesenchymal
BT428	Cell Line	1	1	98	Proneural
BT428	PDX	1	1	98	Proneural
BT428	PDXa	1	38	61
BT428	PDX	1	1	98	Proneural
BT428	PDX	0	1	99	Proneural
BT428	PDXa	0	0	100	Proneural
BT594	Cell Line	100	0	0	Classical
BT618	Cell Line	0	99	1	Mesenchymal
BT618	PDX	0	99	1	Mesenchymal
BT618	Patient Tissue	0	100	0	Mesenchymal
BT667	Cell Line	0	99	1	Mesenchymal
BT667	PDX	0	0	100	Proneural
BT667	PDX	0	99	1	Mesenchymal
BT667	PDXa	15	85	0	Mesenchymal
BT667	Patient Tissue	0	100	0	Mesenchymal
BT667	Patient Tissue	0	100	0	Mesenchymal
BT667	PDX	11	89	0	Mesenchymal
BT667	PDXa	26	73	1
BT698	Cell Line	1	61	38
BT698	Patient Tissue	0	23	77
BT799	Cell Line	0	0	100	Proneural
BT799	PDX	0	0	100	Proneural
BT799	PDXa	0	0	100	Proneural
BT799	PDX	0	0	100	Proneural
BT799	Patient Tissue	0	0	100	Proneural
BT935	Cell Line	3	1	96	Proneural
BT935	PDX	74	0	26
BT935	PDX	87	0	13	Classical
BT935	PDXa	0	0	100	Proneural
BT935	Patient Tissue	0	100	0	Mesenchymal
BT935	PDX	3	2	95	Proneural
BT935	PDXa	7	0	93	Proneural
BT954	Cell Line	79	21	0
BT954	PDX	80	5	15	Classical
BT954	PDX	80	5	15	Classical
BT954	PDXa	80	5	15	Classical
BT954	Patient Tissue	0	40	60
BT954	PDX	80	5	15	Classical
BT954	PDXa	80	5	15	Classical
BT956	Cell Line	1	99	0	Mesenchymal
BT956	Patient Tissue	0	99	1	Mesenchymal
BT972	Cell Line	94	6	0	Classical
BT972	PDX	99	1	0	Classical
BT972	Patient Tissue	0	80	20	Mesenchymal
MBT06	Cell Line	0	100	0	Mesenchymal
MBT06	PDX	13	87	0	Mesenchymal
MBT06	PDX	1	99	0	Mesenchymal
MBT06	PDXa	0	2	98	Proneural
MBT06	PDXa	0	28	72
MBT06	PDX	0	2	98	Proneural
MBT06	PDXa	1	97	2	Mesenchymal
MBT06	PDXa	2	95	3	Mesenchymal
MBT27	Cell Line	2	0	98	Proneural
MBT27	Patient Tissue	0	100	0	Mesenchymal
MBT96	Patient Tissue	0	94	6	Mesenchymal

^aPDX models treated with combination of radiation, chemotherapy, and/or targeted therapy.