Kevin L. Gunderson et al. Genome Res. 2004; 14: 870-877

Assembly of a random array

• 96 well microtiter plate- 1 fibers bundle per well

• 1 bundle ~50,000 glass optical fibers w/ silica bead attached

• 1,536 bead types exist: yields @ 30-fold redundancy per SNP

GoldenGate SNP Genotyping Assay

J-B Fan et al. Cold Spring Harbor Symposia on Quantitative Biology, LXVIII, 69-78, January 2004

Genotyping data from one bundle

J-B Fan et al. Cold Spring Harbor Symposia on Quantitative Biology, LXVIII, 69-78, January 2004

Kevin L. Gunderson et al. Genome Res. 2004; 14: 870-877

Decoding images from eight stages

• Stage-by-Stage

• Core-by-Core

Genotype Calling – More difficult SNP

Mean GenCalls Across SNPs