Physical models of DNA hybridization and microarray data analysis.

DNA microarrays are devices that are capable to monitor the activity of thousands of genes simultaneously. They consist of a solid surface of about few square centimeters in which are arrayed series of thousands of microscopic spots of DNA oligonucleotides, containing each a fragment of a specific sequence. A solution with sequences extracted from a biological sample is poured onto the microarray. Sequences which are complementary to those in the surface hybridize with them, i.e. they bind to form a double helical structure. Although ideally a sequence is expected to bind to its complement only, in a real experiment many other competing reactions take place as cross-hybridizations, self-folding etc. These reactions hinder a correct interpretation of experimental data. The aim of this project is to develop physical models of hybridizations in DNA microarrays in order to understand better their functioning. The models are based on equilibrium and non-equilibrium statistical mechanics and thermodynamics. The investigation makes use also of computer simulations. The results will have an impact on how the experimental data are handled.

Keywords:DNA microarrays, DNA hybridization

Disciplines:Applied mathematics in specific fields, Astronomy and space sciences, Classical physics, Materials physics, Mathematical physics, Quantum physics