Table II.
TMB results with version A and B of the Oncomine™ Tumor Mutation Load bioinformatics pipeline. Cell lines are listed from the highest TMB value to the lowest according to version A.
| Cell line | Mutation load per MB, version A | Mutation load per MB, version B | Estimated SNP proportion consistent with deamination, version A | Estimated SNP proportion consistent with deamination, version B | Mutation counta |
|---|---|---|---|---|---|
| HCC2998 | 179.17 | 176.5 | 0 | 3 | NA |
| RKO | 100.77 | 102.45 | 0 | 4 | 382 |
| LoVo | 77.61 | 74.27 | 1 | 13 | 267 |
| HCT116 | 74.62 | 63.35 | 0 | 2 | 227 |
| LS174T | 54.26 | 58.19 | 0 | 1 | NA |
| SK-MEL-2 | 33.83 | 18.72 | 0 | 4 | 90 |
| HT29 | 15.89 | 10.9 | 0 | 2 | 64 |
| SW1116 | 15.87 | 8.38 | 0 | 1 | 40 |
| H1975 | 10.37 | 6.69 | 0 | 1 | 54 |
| Colo320 | 9.78 | 5.88 | 0 | 1 | 23 |
| H2228 | 8.69 | 6.81 | 0 | 1 | 37 |
| H1650 | 6.74 | 5.04 | 0 | 2 | 25 |
| A549 | 6.25 | 7.57 | 0 | 1 | 34 |
| MCF7 | 6.16 | 3.39 | 0 | 0 | 19 |
| T47D | 4.98 | 2.56 | 0 | 2 | 21 |
The formalin-fixed paraffin-embedded cell lines are underlined.
a
Mutation count included nucleotide substitutions (synonymous and non-synonymous) and short insertion and deletion mutations (31). TMB, tumor mutation burden; SNP, single nucleotide polymorphism; NA, not applicable.