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Arg-PNA Microarrays
Table 4-2. Genotypes related to ApoE mutations
Genotype Oligonucleotide simulation [a]
ε2/ε2 1’ + 2’
ε2/ε4 1’ + 2’ + 3’ + 4’
ε3/ε4 1’ + 3’ + 4’
ε4/ε4 3’ + 4’
ε2/ε3 1’ + 2’ + 4’
ε3/ε3 1’ + 4’
[a] Oligonucleotide sequences (SNP base is underlined in bold): 1’: 5’-
ACGTGTGCGGC-3’, 2’: 5’-AGAAGTGCCTG-3’,
3’: 5’-ACGTGCGCGGC-3’, 4’: 5’-AGAAGCGCCTG-3’.
All the oligonucleotides were derivatized with Cy5
In order to simulate the different genotype combinations, further experiments were then
performed by using oligonucleotide mixtures. The SNPs in the ApoE gene tracts coding for
the 4 different isoforms are: a thymine in ε2 and ε3 and a cytosine in ε4 for the codon
corresponding to the amino acid 112; a thymine in ε2 and a cytosine in ε3 and ε4 for the
codon corresponding to the amino acid 158. By considering all the allelic combinations, the 6
different genotypes were simulated by mixing the corresponding oligonucleotides, as reported
in Table 4-2.
The oligonucleotide mixtures were then incubated in six independent experiments with the
arginine-PNA microarrays, in the same conditions reported before. The results are reported in
figure 4-4.
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