Development and characterization of reference materials for EGFR, KRAS, NRAS, BRAF, PIK3CA, ALK, and MET genetic testing

Technol Health Care. 2023;31(2):485-495. doi: 10.3233/THC-220102.

Abstract

Background: Along with the dramatic development of molecular diagnostic testing for the detection of oncogene variations, reference materials (RMs) have become increasingly important in performance evaluation of genetic testing.

Objective: In this study, we built a set of RMs for genetic testing based on next-generation sequencing (NGS).

Method: Solid tumor tissues were selected as the samples of RMs for preparation. NGS was used to determine and validate the variants and the mutation frequency in DNA samples. Digital PCR was used to determine the copy numbers of RNA samples. The performance of the RMs was validated by six laboratories.

Results: Thirty common genetic alterations were designed based on these RMs. RMs consisted of a positive reference, a limit of detection reference, and a negative reference. The validation results confirmed the performance of the RMs.

Conclusion: These RMs may be an attractive tool for the development, validation, and quality monitoring of molecular genetic testing.

Keywords: Reference materials; genetic testing; oncogene variants; quality control.

MeSH terms

  • Class I Phosphatidylinositol 3-Kinases / genetics
  • ErbB Receptors / genetics
  • GTP Phosphohydrolases / genetics
  • Genetic Testing / methods
  • Humans
  • Membrane Proteins / genetics
  • Mutation
  • Proto-Oncogene Proteins B-raf* / genetics
  • Proto-Oncogene Proteins p21(ras)* / genetics
  • Receptor Protein-Tyrosine Kinases / genetics

Substances

  • BRAF protein, human
  • Class I Phosphatidylinositol 3-Kinases
  • EGFR protein, human
  • ErbB Receptors
  • GTP Phosphohydrolases
  • KRAS protein, human
  • Membrane Proteins
  • NRAS protein, human
  • PIK3CA protein, human
  • Proto-Oncogene Proteins B-raf
  • Proto-Oncogene Proteins p21(ras)
  • Receptor Protein-Tyrosine Kinases
  • MET protein, human