Table 3.
Sequencing data files generated by PDX Development and Trial Centers
| Overall | BCM-HCI | MDACC | UC Davis | WISTAR | WUSTL | |
|---|---|---|---|---|---|---|
| N = 2134 | N = 408 | N = 418 | N = 48 | N = 382 | N = 878 | |
| Experimental strategy n (%) | ||||||
| RNA-Seq | 544 (25%) | 102 (25%) | 6 (1%) | 32 (67%) | 144(38%) | 260(30%) |
| WES | 1590 (75%) | 306 (75%) | 412(99%) | 16 (33%) | 238(62%) | 618(70%) |
| Disease type, n (%) | ||||||
| Bladder | 114(5.0%) | 2(<0.5%) | 4(1.0%) | 48(100%) | 4(1%) | 56(6.4%) |
| Blood | 84(4.0%) | 0(0%) | 84(20.0%) | 0(0%) | 0(0%) | 0(0%) |
| Bone | 8(0.4%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 8(0.9%) |
| Breast | 586(27%) | 382(93%) | 0(0%) | 0(0%) | 0(0%) | 204(23%) |
| Colon | 180(8.4%) | 4(1.0%) | 8(2.0%) | 0(0%) | 0(0%) | 160(18%) |
| Gastrointestinal | 34(1.6%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 34(3.9%) |
| Head and Neck | 24(1.1%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 24(2.7%) |
| Kidney | 58(2.7%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 58(6.6%) |
| Lung | 364(17%) | 0(0%) | 322(77%) | 0(0%) | 0(0%) | 42(4.8%) |
| Ovarian | 8(0.4%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 8(0.9%) |
| Pancreas | 174(8.1%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 174(20%) |
| Rectum | 22(1.0%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 22(2.5%) |
| Skin | 402(19.0%) | 0(0%) | 0(0%) | 0(0%) | 370(97%) | 32(3.7%) |
| Soft Tissue Neoplasm | 56(2.6%) | 0(0%) | 0(0%) | 0(0%) | 0(0%) | 56(6.4%) |
| Unknown | 20(0.9%) | 20(5.0%) | 0(0%) | 0(0%) | 0(0%) | 0(1.7%) |
| Sample type, n (%) | ||||||
| Normal | 392(18%) | 32(8%) | 142(34%) | 0(0%) | 0(0%) | 218(25%) |
| PDX | 1,194(56%) | 328(80%) | 146(35%) | 0(0%) | 202(53%) | 515(59%) |
| Tumor | 548(26%) | 48(12%) | 130(31%) | 48(100) | 180(47%) | 142(16%) |
HCI-BCM: Huntsman Cancer Institute and Baylor College of Medicine, MDACC: MD Anderson Cancer Center, WUSTL: Washington University at St. Louis, Wistar: The Wistar Institute, UC Davis: University of California Davis, BCM: Baylor College of Medicine