Clinical information and tumor characteristics (immunophenotype, cytogenetics, and targeted DNA sequencing results) of ETP-ALL and T-ALL PDX models
| PDX name . | WHO classification . | Treatment phase at time of sample . | Age, y . | Sex . | Patient tumor mutations . | Patient tumor karyotype . | PDX immunophenotype . | PDX molecular details . | PDX NOTCH1 mutations . | Mouse strain . |
|---|---|---|---|---|---|---|---|---|---|---|
| TALL-06078-150 | T-ALL | Relapse | 0.87 | F | CDKN2A homozygous deletion (?) | TCR gamma homozygous deletion | NA | NA | ARID1B missense NM_017519 c.2791G>A p.A931T in 50.4% of 260 reads | MLL3 missense NM_170606 c.2959T>C p.Y987H in 26.3% of 604 reads | MLL3 missense NM_170606 c.2963G>T p.C988F in 13.5% of 600 reads | MLL3 missense NM_170606 c.943G>A p.G315S in 11.0% of 872 reads | None detected | NSG |
| TALL-x-12 | T-ALL | Unknown | 12.61 | M | NA | 47XY,+8,add(9)(p13) | CD45+, CD2+, CD34−, CD33−, CD19− | NOTCH1 missense NM_017617 c.4721T>C p.L1574P in 99.0% of 101 reads | NOTCH1 p.L1574P | NSG |
| TALL-DFAT-28537 | T-ALL | Diagnosis | 25 | M | FBXW7 NM_033632 c.1394G>A p.R465H - in 35.4% of 311 reads | FBXW7 NM_033632 c.1514G>A p.R505H - in 5.7% of 316 reads | NOTCH1 NM_017617 c.4775T>C p.F1592S - in 36.8% of 57 reads | NA | CD45+, CD2+, CD34−, CD33−, CD19− | NA | NOTCH1 p.F1592S | NSG |
| TALL-x-15 | T-ALL | Relapse | 2.87 | M | CDKN2A homozygous deletion | TCR gamma homozygous deletion | NA | NA | MYCN missense NM_005378 c.131C>T p.P44L in 55.2% of 270 reads | TP53 missense NM_001126112 c.503A>C p.H168P in 48.9% of 325 reads | MLL3 missense NM_170606 c.2963G>T p.C988F in 37.0% of 492 reads | MLL3 missense NM_170606 c.2959T>C p.Y987H in 23.6% of 512 reads | MLL3 missense NM_170606 c.1042G>A p.D348N in 14.7% of 504 reads | None detected | NSG |
| TALL-x-9 | T-ALL | Diagnosis | 6.05 | F | CDKN2A homozygous deletion | PTEN heterozygous deletion | TCR gamma ABD heterozygous deletion | 46XX,−7,−14. +2 mar | CD45+, CD2 (dim), CD34−, CD33−, CD19− | NOTCH1 missense NM_017617 c.4793G>C p.R1598P in 45.9% of 146 reads | NOTCH1 p.R1598P | NSG |
| ETP-1-IKN | ETP-ALL | Diagnosis | 8 | M | CTCF SV, DNM2 K557_K558 . K, JAK3 M511I, WT1 R370fs | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | NOTCH1 p.F1693S | NSG |
| ETP-12 | ETP-ALL | Diagnosis | 16 | M | EZH2 S651L, RUNX1 T148fs, NOTCH1 S2492*, IKZF1 SV, PHF6 N147fs, SUZ12 C350R, WT1 C350R L564_S568, SH2B3 SV | NA | CD1a−, cCD3+, CD5+, CD7+ | NA | NOTCH1 p.S2492* | NSG |
| ETP-13 | ETP-ALL | Diagnosis | 3 | M | EED S259F | NA | CD1a−, cCD3+, CD5+, CD7+ | NA | NOTCH1 p.G1433R | NSG |
| ETP-14 | ETP-ALL | Diagnosis | 14 | M | GATA3 N286T and S271_W275fs, JAK1 S703I, PTEN SV, RB1 SV CDKN2A/B SV | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | Not detected | NSG |
| PATRAP (ETP-27) | ETP-ALL | Diagnosis | 7 | F | NA | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | Not detected | NSG |
| ETP-5-XNE | ETP-ALL | Diagnosis | 15 | M | PTPN11 A72V | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | Not detected | NSG |
| ETP-8-KMG | ETP-ALL | Diagnosis | 19 | F | ECT2L E12_splice and W440G, GATA3 A310_A314 . A, R276Q, JAK1 E1012 > EK, SH2B3 V65A, I257T | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | NOTCH1 p.V1578E | NSG |
| PDX name . | WHO classification . | Treatment phase at time of sample . | Age, y . | Sex . | Patient tumor mutations . | Patient tumor karyotype . | PDX immunophenotype . | PDX molecular details . | PDX NOTCH1 mutations . | Mouse strain . |
|---|---|---|---|---|---|---|---|---|---|---|
| TALL-06078-150 | T-ALL | Relapse | 0.87 | F | CDKN2A homozygous deletion (?) | TCR gamma homozygous deletion | NA | NA | ARID1B missense NM_017519 c.2791G>A p.A931T in 50.4% of 260 reads | MLL3 missense NM_170606 c.2959T>C p.Y987H in 26.3% of 604 reads | MLL3 missense NM_170606 c.2963G>T p.C988F in 13.5% of 600 reads | MLL3 missense NM_170606 c.943G>A p.G315S in 11.0% of 872 reads | None detected | NSG |
| TALL-x-12 | T-ALL | Unknown | 12.61 | M | NA | 47XY,+8,add(9)(p13) | CD45+, CD2+, CD34−, CD33−, CD19− | NOTCH1 missense NM_017617 c.4721T>C p.L1574P in 99.0% of 101 reads | NOTCH1 p.L1574P | NSG |
| TALL-DFAT-28537 | T-ALL | Diagnosis | 25 | M | FBXW7 NM_033632 c.1394G>A p.R465H - in 35.4% of 311 reads | FBXW7 NM_033632 c.1514G>A p.R505H - in 5.7% of 316 reads | NOTCH1 NM_017617 c.4775T>C p.F1592S - in 36.8% of 57 reads | NA | CD45+, CD2+, CD34−, CD33−, CD19− | NA | NOTCH1 p.F1592S | NSG |
| TALL-x-15 | T-ALL | Relapse | 2.87 | M | CDKN2A homozygous deletion | TCR gamma homozygous deletion | NA | NA | MYCN missense NM_005378 c.131C>T p.P44L in 55.2% of 270 reads | TP53 missense NM_001126112 c.503A>C p.H168P in 48.9% of 325 reads | MLL3 missense NM_170606 c.2963G>T p.C988F in 37.0% of 492 reads | MLL3 missense NM_170606 c.2959T>C p.Y987H in 23.6% of 512 reads | MLL3 missense NM_170606 c.1042G>A p.D348N in 14.7% of 504 reads | None detected | NSG |
| TALL-x-9 | T-ALL | Diagnosis | 6.05 | F | CDKN2A homozygous deletion | PTEN heterozygous deletion | TCR gamma ABD heterozygous deletion | 46XX,−7,−14. +2 mar | CD45+, CD2 (dim), CD34−, CD33−, CD19− | NOTCH1 missense NM_017617 c.4793G>C p.R1598P in 45.9% of 146 reads | NOTCH1 p.R1598P | NSG |
| ETP-1-IKN | ETP-ALL | Diagnosis | 8 | M | CTCF SV, DNM2 K557_K558 . K, JAK3 M511I, WT1 R370fs | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | NOTCH1 p.F1693S | NSG |
| ETP-12 | ETP-ALL | Diagnosis | 16 | M | EZH2 S651L, RUNX1 T148fs, NOTCH1 S2492*, IKZF1 SV, PHF6 N147fs, SUZ12 C350R, WT1 C350R L564_S568, SH2B3 SV | NA | CD1a−, cCD3+, CD5+, CD7+ | NA | NOTCH1 p.S2492* | NSG |
| ETP-13 | ETP-ALL | Diagnosis | 3 | M | EED S259F | NA | CD1a−, cCD3+, CD5+, CD7+ | NA | NOTCH1 p.G1433R | NSG |
| ETP-14 | ETP-ALL | Diagnosis | 14 | M | GATA3 N286T and S271_W275fs, JAK1 S703I, PTEN SV, RB1 SV CDKN2A/B SV | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | Not detected | NSG |
| PATRAP (ETP-27) | ETP-ALL | Diagnosis | 7 | F | NA | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | Not detected | NSG |
| ETP-5-XNE | ETP-ALL | Diagnosis | 15 | M | PTPN11 A72V | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | Not detected | NSG |
| ETP-8-KMG | ETP-ALL | Diagnosis | 19 | F | ECT2L E12_splice and W440G, GATA3 A310_A314 . A, R276Q, JAK1 E1012 > EK, SH2B3 V65A, I257T | NA | CD1a−, cCD3+, CD5 dim, CD7+ | NA | NOTCH1 p.V1578E | NSG |
NA, not available.