Figure 1 - TAMS assay.

(a) Components used for the hybridization of TAMS products. One silicon rubber grid with 80 reaction wells and a second with 16 wells are shown in the front. A plexiglas cover for three microarray slides with 80 reaction wells each is shown on the right of an aluminium rack. The plexiglas cover has drilled holes matching the silicon rubber wells. The screws are used to tighten the assembly (see Experimental design for assembling details). (b) An 'array-of-arrays' format is used to analyze multiple SNPs in many samples in parallel. The two different configurations of the system make it flexible with the possibility to easily change the numbers of SNPs and samples to be interrogated (196 SNPs in 80 samples or 576 SNPs in 96 samples). The dimensions for both formats used for array spotting are indicated, e.g., the diameters of the spots and the silicon grid chambers as well as the center-to-center distances between two spots and two subarrays. The spot measures may vary slightly depending on the needle used for spotting. (c) Four color mini-sequencing in solution in which primers hybridize next to each SNP site and are extended with fluorescently labeled terminating nucleotide analogs (ddNTPs). The primers carry 5'-tag sequences that enable them to hybridize to complementary sequences immobilized on a microarray to determine homozygous and heterozygous SNPs. (d) On the left is an example of one subarray scanned at the wavelength visualizing incorporated ddCTP nucleotides labeled with TAMRA fluorophore. Enlargement of the mapping result for C233, an eyes absent allele, is shown on the right. The entire mapping result is depicted in Figure 5. Black bars indicate the determined genetic interval from the stage 1 mapping.