Table 2. Study of the inter-run and inter-laboratory reproducibility using the Tru-Q NGS DNA3 control sample.
| Gene | Nucleotide change | Amino Acid change | VAF (Laboratory 1) | VAF (Laboratory 2) | Mean inter-laboratories | ExpectedVAF (%)b | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Meana | SD | CV(%) | Meana | SD | CV(%) | Meana | SD | CV(%) | ||||
| BRAF | c.1798G>A | p.Val600Met | 3.88 | 0.45 | 11.55 | 4.10 | 0.37 | 9.09 | 4.01 | 0.37 | 9.16 | 4.0 |
| EGFR | c.2235_2249delGGA ATTAAGAGAAGC | p.Glu746_Ala750del | 4.13 | 0.70 | 16.98 | 4.01 | 0.23 | 5.69 | 4.06 | 0.39 | 9.64 | 4.2 |
| MET | c.3757T>G | p.Tyr1253Asp | 4.25 | 0.48 | 11.30 | 4.56 | 0.33 | 7.28 | 4.44 | 0.38 | 8.45 | 4.0 |
| KRAS | c.436G>A | p.Ala146Thr | 4.43 | 0.17 | 3.89 | 5.41 | 0.10 | 1.78 | 5.02 | 0.55 | 10.86 | 5.0 |
| KRAS | c.34G>A | p.Gly12Ser | 4.78 | 0.48 | 9.97 | 5.26 | 0.34 | 6.44 | 5.07 | 0.43 | 8.46 | 5.0 |
| NRAS | c.183A>T | p.Gln61His | 4.42 | 0.92 | 20.84 | 5.17 | 0.85 | 16.47 | 4.87 | 0.86 | 17.70 | 5.0 |
| PIK3CA | c.1624G>A | p.Glu542Lys | 5.07 | 1.09 | 21.50 | 6.13 | 0.13 | 2.12 | 5.71 | 0.80 | 14.05 | 5.0 |
| BRAF | c.1799T>A | p.Val600Glu | 7.57 | 0.39 | 5.17 | 7.13 | 0.17 | 2.42 | 7.30 | 0.33 | 4.56 | 8.0 |
| EGFR | c.2155G>A | p.Gly719Ser | 16.40 | 0.44 | 2.70 | 15.75 | 0.42 | 2.68 | 16.01 | 0.51 | 3.22 | 16.7 |
| MET | c.710delT | p.Leu238TyrfsTer25 | 20.33 | 0.29 | 1.41 | 19.74 | 0.39 | 1.98 | 19.97 | 0.45 | 2.26 | 20.0 |
| KRAS | c.38G>A | p.Gly13Asp | 25.13 | 4.14 | 16.49 | 26.24 | 0.12 | 0.46 | 25.80 | 2.16 | 8.38 | 25.0 |
| PIK3CA | c.3140A>G | p.His1047Arg | 29.09 | 0.63 | 2.17 | 28.45 | 0.41 | 1.43 | 28.71 | 0.55 | 1.93 | 30.0 |
a Mean of three independent experiments
b measured by ddPCR
SD, Standard deviation; CV, Coefficient of variation; VAF, Variance allele frequencies; ddPCR, droplet digital PCR