Three-dimensional microarray platform applied to single nucleotide polymorphism analysis

Bio‐Strand, Inc., has developed a novel DNA microarray platform utilizing a three‐dimensional (3D) DNA format. DNA probes or polymerase chain reaction (PCR) products are spotted onto a thread‐like scaffold, which is then wound onto a cylindrical core. By wrapping the thread around the core, high efficiencies are achieved in sample analysis. Using allele‐specific oligo (ASO) competitive hybridization (with Cy5 fluorescently labeled sequences), hybridized arrays are visualized using a helium–neon (HeNe) laser and quantitated/scored. The method can readily detect single nucleotide differences. We demonstrate the use of this Bio‐Strand 3D array in the analysis of a single nucleotide polymorphism (SNP). © 2004 Wiley Periodicals, Inc.