Table 1.
Rules for calling KBN-SNPE results when assaying samples in triplicate.
Table 2.
Mutations identified by the KBN-SNPE assay and their resulting amino acid change.
Figure 1.
KBN-SNPE results for BRAF Probe Pool 7.
Panel A: wild type control. Panels B–C: Examples of V600E and V600D mutations. Positions of codons and nucleotides are indicated at the bottom of the figure. Nucleotide label for each peak have been converted to the sense strand.
Figure 2.
KBN-SNPE results for BRAF Probe Pool 6.
Panel A: wild type control. Positions of codons and nucleotides are indicated at the bottom of the figure. Nucleotide label for each peak have been converted to the sense strand.
Figure 3.
KBN-SNPE results for NRAS Probe Pool.
Panel A: wild type control. Panels B–C: Examples of Q61K and Q61L mutations. Positions of codons and nucleotides are indicated at the bottom of the figure. Nucleotide label for each peak have been converted to the sense strand.
Figure 4.
KBN-SNPE results for KRAS Probe Pool.
Panel A: wild type control. Panels B–E: Examples of G12S, G12D, G12V and G13D mutations. Positions of codons and nucleotides are indicated at the bottom of the figure. Nucleotide label for each peak have been converted to the sense strand.
Table 3.
KBN-SNPE results using gDNA isolated from cell lines with previously identified mutations in KRAS, BRAF or NRAS.
Table 4.
Performance of the KBN-SNPE assay with synthetic oligonucleotides.
Table 5.
Analytical Accuracy: Mutation Analysis of Genomic DNA by KBN-SNPE and Sanger Sequencing.
Table 6.
Percentage of tumors with mutations in KRAS, BRAF or NRAS as reported in the COSMIC Database and this study.
Table 7.
Intra-Run Variation (Repeatability).
Table 8.
Inter-Run Variation (Reproducibility).
Table 9.
Lowest percentage of mutant DNA in wild type background and still detect mutation.
Table 10.
Accuracy rates for BRAF/KRAS/NRAS when samples were assayed in triplicate.
Table 11.
Performance characteristics for the KBN-SNPE at the gene level.
Table 12.
Performance characteristics for the KBN-SNPE at the sample, or patient, level.