Diagnostic guidelines for high-resolution melting curve (HRM) analysis: an interlaboratory validation of BRCA1 mutation scanning using the 96-well LightScanner.
Genetic analysis of BRCA1 by sequencing is often preceded by a scanning method like denaturing gradient gel electrophoresis (DGGE), protein truncation test (PTT) or DHPLC. High-resolution melting curve (HRM) analysis is a promising and economical method for high-throughput mutation scanning. The EuroGentest network (www.eurogentest.org) aims to assist with the introduction of novel technologies in the diagnostic setting. Therefore, we have performed a thorough and high-standard interlaboratory evaluation and validation of HRM, in collaboration with Idaho Technology, the manufacturer of the LightScanner (LS). Through this detailed study of 170 variants, we have generated guidelines for easy setup and implementation of HRM as a scanning technique for new genes, which are adaptable to the quality system of an individual diagnostic laboratory. This validation study includes the description of a BRCA1-specific mutation screening test using the 96-well LS. This assay comprises 40 amplicons and was evaluated using a statistically significant elaborate panel of variants and control DNA samples. All heterozygous variants were detected. Moreover, genotype analysis for nine common polymorphisms created a fast screening and detection method for these frequently occurring nonpathogenic variants. A blind study using a total of 28 patient-derived DNA samples resulted also in 100% detection and showed an average specificity of 98%, indicating a low incidence of false positives (FPs).
Center for Human and Clinical Genetics, Leiden University Medical Center, Leiden, The Netherlands. nvdstoep@lumc.nl
Nienke
N
van der Stoep
Chantal D M
CD
van Paridon
Tom
T
Janssens
Petra
P
Krenkova
Alexandra
A
Stambergova
Milan
M
Macek
Gert
G
Matthijs
Egbert
E
Bakker
D019313:BRCA1 Protein / Q000235:genetics*; D004247:DNA / Q000302:isolation & purification; D004252:DNA Mutational Analysis / Q000295:instrumentation* / Q000379:methods*; D017931:DNA Primers / Q000378:metabolism; D017353:Gene Deletion; D005820:Genetic Testing / Q000379:methods*; D005838:Genotype; D017408:Guidelines as Topic; D006801:Humans; D007753:Laboratories; D009154:Mutation / Q000235:genetics*; D009691:Nucleic Acid Denaturation; D011110:Polymorphism, Genetic
D019313:BRCA1 Protein; D017931:DNA Primers; D004247:DNA