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Sequence-dependent properties of DNA. Optimization of empirical parameterizations

✍ Scribed by Eugene S. Pysh

Publisher
Wiley (John Wiley & Sons)
Year
1975
Tongue
English
Weight
520 KB
Volume
14
Category
Article
ISSN
0006-3525

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✦ Synopsis

Abstract

Some physical properties of DNA can be expressed reasonably as an expansion of the interaction among base pairs. For strictly random sequences, the terms of the expansion can be rearranged in such a way that an empirical parameterization of the nearest neighbor truncation is in fact correct to all orders. A parameterization obtained from data on real native DNA's is shown to be more accurate than the term β€œnearest neighbor approximation” implies. When synthetic polynucleotide duplexes are used in the parameterization, the degree of its accuracy depends on the selection of duplexes. It is shown here how to optimize such a parameterization for a given set of available duplexes.

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