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GeneChip Essentials - How Affymetrix GeneChip® DNA Microarrays Work
How Affymetrix genotyping microarrays work

All GeneChip microarrays take advantage of the natural chemical attraction between DNA molecules. There are only four molecules, or "bases", in every DNA chain: adenine (A), guanine (G), thymine (T) and cytosine (C). These four molecules partner: C partners with G and T partners with A. Pairing is a natural state for DNA and if you pulled the double helix apart, it would inevitably move back together, like two long chains of magnets that are attracted to each other.

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