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. Author manuscript; available in PMC: 2009 Jun 3.
Published in final edited form as: Nat Methods. 2006 Jun;3(6):439–445. doi: 10.1038/nmeth881

Figure 4. Bead haplotyping.

Figure 4

An emulsion PCR is performed in which the product of a haplotype fusion PCR is amplified onto paramagnetic beads (yellow) loaded with a universal oligonucleotide (blue). For simplicity, only a single double-stranded template labelled with the two bases to be genotyped is illustrated. Emulsion PCR generates beads coated in single-stranded amplified product from single molecule templates. These beads are cast into a thin polyacrylamide gel (grey) on a microscope slide. Sequential rounds of genotyping by single base extension with dye-labelled nucleotides yield two images that can be overlaid and offset to reveal the haplotype on each bead. For each genotyping reaction, the annealing position of the single base extension primer on the bead-immobilised template is shown, together with the dye-labelled nucleotide that is incorporated.