Table 1.
Tissues analyzed by integration site sequencing and frequency of integration near Cancergenes
| Mouse | Disease state | Tissue | Integration sites | Sites within 50 kb cancergenes 5′ end | Percentage of Cancergenes (tissue) | Percentage of Cancergenes (mouse) |
|---|---|---|---|---|---|---|
| Total reads (unique sites) | Total reads (unique sites) | Total reads (unique sites) | Total reads (unique sites) | |||
| Gamma-retroviral vector in rag-deficient mice | ||||||
| 1 | Healthy control | LN | 2360 (274) | 269 (45) | 11.4 (16.4) | 10.1 (15.3) |
| marrow | 2701 (101) | 137 (17) | 5.1 (16.8) | |||
| thymus | 3262 (103) | 436 (11) | 13.4 (10.7) | |||
| 215 | Lymphoproliferation | LN | 6950 (60) | 262 (6) | 3.8 (10.0) | 3.3 (13.6) |
| marrow | 1893 (33) | 39 (3) | 2.1 (9.1) | |||
| spleen | 4734 (48) | 173 (7) | 3.7 (14.6) | |||
| thymus | 4044 (43) | 104 (9) | 2.6 (20.9) | |||
| X | Lymphoproliferation | liver | 4049 (40) | 1344 (10) | 33.2 (25.0) | 33.3 (23.5) |
| marrow | 4160 (53) | 1433 (11) | 34.4 (20.8) | |||
| spleen | 5287 (43) | 1717 (11) | 32.5 (25.6) | |||
| Lentiviral (EF1α) vector in artemis-deficient mice | ||||||
| 22 | Healthy control | LN | 7789 (325) | 268 (21) | 3.4 (6.5) | 5.1 (6.0) |
| marrow | 3387 (89) | 322 (4) | 9.5 (4.5) | |||
| spleen | 7028 (252) | 482 (16) | 6.9 (6.3) | |||
| thymus | 3325 (50) | 25 (2) | 0.8 (4.0) | |||
| 31 | Healthy cells pretransplantation | Sca1+ | 9574 (337) | 735 (25) | 7.7 (7.4) | 7.7 (7.4) |
| Lymphoproliferation | LN | 3687 (215) | 89 (20) | 2.4 (9.3) | 1.7 (9.0) | |
| spleen | 1669 (6) | 0 (0) | 0 (0) | |||
| 8 | Healthy cells pretransplantation | Sca1+ | 10648 (265) | 597 (18) | 5.6 (6.8) | 5.6 (6.8) |
| Lymphoproliferation | LN | 737 (46) | 3 (3) | 0.4 (6.5) | 0.04 (3.9) | |
| liver | 14041 (11) | 0 (0) | 0 (0) | |||
| pleural fluid | 7183 (55) | 13 (3) | 0.2 (5.5) | |||
| spleen | 7179 (18) | 0 (0) | 0 (0) | |||
| thymus | 12290 (23) | 0 (0) | 0 (0) | |||
| Lentiviral (PGK) vector in artemis-deficient mice | ||||||
| 401 | Healthy control | LN | 1647 (65) | 117 (4) | 7.1 (6.2) | 4.3 (9.5) |
| marrow | 379 (41) | 41 (4) | 10.8 (9.8) | |||
| spleen | 1265 (40) | 40 (4) | 3.2 (10.0) | |||
| thymus | 2487 (53) | 50 (7) | 2.0 (13.2) | |||
| 613 | Healthy cells pretransplantation | Sca1+ | 26477 (37) | 0 (0) | 0 (0) | 0 (0) |
| Lymphoproliferationa | LN | 42 (5) | 0 (0) | 0 (0) | 1.0 (5.9) | |
| marrow | 31 (6) | 1 (1) | 3.2 (16.7) | |||
| thymus | 26 (6) | 0 (0) | 0 (0) | |||
| MLV-based vector in MEF | 7420 (4828) | 1003 (632) | 13.5 (13.1) | |||
| HIV-based vector in MEF | 3929 (2441) | 329 (209) | 8.4 (8.6) | |||
aThese samples were sequenced using the Sanger method only.
LN, lymph nodes.