DASH-2: flexible, low-cost, and high-throughput SNP genotyping by dynamic allele-specific hybridization on membrane arrays.
Genotyping technologies need to be continually improved in terms of their flexibility, cost-efficiency, and throughput, to push forward genome variation analysis. To this end, we have leveraged the inherent simplicity of dynamic allele-specific hybridization (DASH) and coupled it to recent innovations of centrifugal arrays and iFRET. We have thereby created a new genotyping platform we term DASH-2, which we demonstrate and evaluate in this report. The system is highly flexible in many ways (any plate format, PCR multiplexing, serial and parallel array processing, spectral-multiplexing of hybridization probes), thus supporting a wide range of application scales and objectives. Precision is demonstrated to be in the range 99.8-100%, and assay costs are 0.05 USD or less per genotype assignment. DASH-2 thus provides a powerful new alternative for genotyping practice, which can be used without the need for expensive robotics support.
Center for Genomics and Bioinformatics, Karolinska Institute, Berzelius väg 35, S-171 77 Stockholm, Sweden.
Magnus
M
Jobs
W Mathias
WM
Howell
Linda
L
Stromqvist
Torsten
T
Mayr
Anthony J
AJ
Brookes
D000483:Alleles; D005838:Genotype; D006801:Humans; D008567:Membranes, Artificial; D009693:Nucleic Acid Hybridization / Q000235:genetics* / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis / Q000191:economics* / Q000295:instrumentation / Q000379:methods*; D016133:Polymerase Chain Reaction / Q000379:methods; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000191:economics / Q000295:instrumentation / Q000379:methods; D013696:Temperature
D008567:Membranes, Artificial