Table 2.
T-ALL and B-ALL cell surface immunotherapy targets.
| T-ALL vs. normal tissue |
B-ALL vs. normal tissue |
||||||||
|---|---|---|---|---|---|---|---|---|---|
| Rank (T) | Fold-change | Symbol | Comment | Affy ID | Rank (T) | Fold-change | Symbol | Comment | Affy ID |
| 1a | 97.6 | TCRBV5-4 | TCR beta chain | 211796_s_at | 1 | 90.8 | CD69 | 209795_at | |
| 2 | 67.5 | CD3D | CD3-delta | 213539_at | 2 | 83.3 | VPREB1 | Pre-B lymphocyte 1 | 221349_at |
| 3 | 64.9 | PTGER4 | Prostaglandin E, R4 | 204897_at | 3 | 57.3 | CD52 | 34210_at | |
| 4 | 60.8 | CD69 | 209795_at | 4 | 53.9 | IGHM | Ig HC-M | 212827_at | |
| 1b | 56.7 | TRBC1 | TCR beta chain | 210915_x_at | 5 | 44.3 | CXCR4 | 217028_at | |
| 1c | 48.9 | TCBC1/BV19 | TCRB | 213193_x_at | 6 | 43.1 | IGGL1 | Surrogate light chain | 206660_at |
| 5 | 39.4 | ITGA4 | CD49d | 213416_at | 7 | 39.7 | CD24 | 208650_s_at | |
| 6 | 36.7 | CD52 | 34210_at | 8 | 35.4 | VPREB3 | 220068_at | ||
| 7 | 35.3 | CD1E | 215784_at | 9 | 34.9 | LILRA2 | 207857_at | ||
| 1d | 28.6 | TCRDC | TCR delta constant | 216191_s_at | 10 | 27.7 | EVI2B | 211742_s_at | |
| 8 | 26.1 | SELL | CD62L/selectin L | 204563_at | 11 | 26.9 | MME | CD10/CALLA | 203434_s_at |
| 9 | 25.6 | CD28 | 206545_at | 12 | 26.7 | PTGER4 | 204897_at | ||
| 10 | 24.6 | CXCR4 | 217028_at | 13 | 23.4 | ITGA4 | 213416_at | ||
| 11 | 23.1 | EVI2B | CD361 | 211742_s_at | 14 | 22.0 | CD79A | 205049_s_at | |
| 12 | 20.9 | SLC39A8 | Zinc transporter | 209267_s_at | 15 | 21.7 | CD79B | 205297_s_at | |
| 13 | 20.2 | ICAM-3/CD50 | 204949_at | 16 | 18.1 | CLEC2B | 209732_at | ||
| 14 | 19.6 | PTPRC | CD45R | 212588_at | 17 | 16.9 | SLC39A8 | 209267_s_at | |
| 15 | 17.1 | CD96 | 206761_at | 18 | 16.7 | CD19 | 206398_s_at | ||
| 16 | 16.4 | CD7 | 214551_s_at | 19a | 16.7 | HLA-DRA | MHC class II | 208894_at | |
| 17 | 15.3 | ITGAL/CD11a | 1554240_a_at | 20 | 16.7 | MICB | 206247_at | ||
| 18 | 14.4 | MICB | Ligand for NKG2D | 206247_at | 21 | 14.7 | LRRC70 | 238488_at | |
| 19 | 13.0 | LRRC70 | SLRN | 238488_at | 19b | 14.2 | HLA-DQ1 | 212671_s_at | |
| 20 | 13.0 | CD2 | 205831_at | 22 | 14.2 | PAG1 | 225622_at | ||
| 21 | 12.6 | CD3E | CD3-epsilon | 205456_at | 23 | 13.0 | LILRB2 | 210146_x_at | |
| 1e | 12.4 | TCRG2 | TCR gamma C 2 | 213060_s_at | 24 | 12.8 | CD58 | 211744_s_at | |
| 22 | 12.2 | CLEC2B | C-type lectin | 209732_at | 25 | 12.3 | CD37 | 204192_at | |
| 23 | 11.6 | CD247 | TCR zeta chain | 210031_at | 26 | 12.3 | HMHB1 | 208302_at | |
| 24 | 11.4 | IL2RG | CD132 | 204116_at | 27 | 11.1 | FLT3 | 206674_at | |
| 1f | 11.2 | TCR delta | 213830_at | 28 | 10.4 | CD72 | 215925_s_at | ||
| 25 | 11.0 | CD1B | 206749_at | 29 | 10.3 | CD53 | 203416_at | ||
| 26 | 11.0 | CD3G | CD3 gamma | 206804_at | 30 | 10.2 | LRR8C | 223533_at | |
| 27 | 10.6 | P2RY8 | 229686_at | 19c | 10.1 | HLA-DPA1 | 211991_s_at | ||
| 28 | 10.4 | HMMR | RHAMM/CD168 | 207165_at | 31 | 9.8 | FAIM3 | FcR for IgM | 221601_s_at |
| 29 | 10.2 | CD37 | 204192_at | 32 | 9.7 | CMTM7 | CKLFSF7 | 226017_at | |
| 30 | 10.2 | CD99 | 201028_s_at | 33 | 9.6 | TLR1 | CD281 | 210176_at | |
| 31 | 10.2 | HHIP | 1556037_s_at | 34 | 9.5 | MS4A1 | 228592_at | ||
| 32 | 8.5 | IL-7R | 226218_at | 35 | 9.1 | LST1 | 214181_x_at | ||
| 33 | 8.5 | LST1 | 214181_x_at | 19d | 9.1 | HLA-DMA | 217478_s_at | ||
| 34 | 8.3 | PTPRCAP | CD45AP | 204960_at | 36 | 8.7 | IGHD | 213674_x_at | |
| 35 | 7.8 | HMHA1 | Minor HA-1 | 212873_at | 37 | 8.4 | CMTM6 | 217947_at | |
| 36 | 7.5 | LPAR6 | Lysophosphatidic acid R | 218589_at | 38 | 8.3 | CD97 | 237510_at | |
| 37 | 7.1 | ORAI2 | Ca++ channel modulator | 217529_at | 39 | 8.1 | MHMA1 | 212873_at | |
| 1g | 7.0 | TCRGC 2 | 211144_x_at | 40 | 7.9 | MILR1 | 217513_at | ||
| 38 | 6.9 | CD84 | 244352_at | 41 | 7.9 | ICAM-3 | 204949_at | ||
| 39 | 6.8 | TSHR | 215442_s_at | 42 | 7.7 | SELL | 204563_at | ||
| 40 | 6.8 | CMTM6 | CKLFSF6 | 217947_at | 43 | 7.5 | LY9 | CD229 | 231124_x_at |
The left hand side of the table lists the top scoring hits for T-ALL, and the right side of the table shows the top hits for pre-B-ALL, expressed as the ratio of expression in the leukemia over the expression of that transcript in normal tissue (117 samples covering all major tissue types of the body). These values were calculated using the ANOVA module in PartekGenomics Suite (Partek, Inc., St. Louis, MO, USA), where T tests, ratio of average expression, and the associated p values were calculated. Rank, indicates the numerical order list, with the TCR subunits for T-ALL and the MHC class II genes for B-ALL marked with a letter so as to indicate the presence of very similar hits. The affy ID generating the highest scoring hit is reported, and hits for identical genes were not repeated. The comment column is used to report alternate nomenclature. Boxes are used to indicate genes we have previously described as over-expressed in B-ALL (4). Gene symbols in bold italic are present in both T-ALL and B-ALL lists. The highest p value for all the analyses presented in this table was 2.2 × 10−30, and thus p values are not presented in the table.