On Critical Relative Distance of DNA Codes for Additive Stem Similarity

Details On Critical Relative Distance of DNA Codes for Additive Stem Similarity On Critical Relative Distance of DNA Codes for Additive Stem Similarity

2010-01-08

arxiv.org/abs/1001.1278v1

Computer Science

Information Theory

5 or 6 pages (compiler-dependable), 0 figures, submitted to 2010 IEEE International Symposium on Information Theory (ISIT 2010

Scientific paper

We consider DNA codes based on the nearest-neighbor (stem) similarity model which adequately reflects the "hybridization potential" of two DNA sequences. Our aim is to present a survey of bounds on the rate of DNA codes with respect to a thermodynamically motivated similarity measure called an additive stem similarity. These results yield a method to analyze and compare known samples of the nearest neighbor "thermodynamic weights" associated to stacked pairs that occurred in DNA secondary structures.

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