DNA microarrays are used to detect specific sequences within DNA samples, and consist of known single stranded DNA fragments, referred to as probes, which are attached to a solid surface. Labeled sample DNA, if complementary, will then hybridize with the probes. As microarrays have multiple probe strands on a given surface, their proximity can effect hybridization. The effect of surface density and of temperature on DNA decamer duplexes in a model microarray is studied in this work with Monte Carlo molecular simulation and a coarse-grained model.

Modified coarse-grained DNA model and its application to surface density effects on decamer hybridization

249th National Meeting (2015)

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