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arXiv · 1607.02279

Rates of DNA Sequence Profiles for Practical Values of Read Lengths

Zuling Chang·Johan Chrisnata·Martianus Frederic Ezerman·Han Mao Kiah
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Abstract

A recent study by one of the authors has demonstrated the importance of profile vectors in DNA-based data storage. We provide exact values and lower bounds on the number of profile vectors for finite values of alphabet size $q$, read length $\ell$, and word length $n$.Consequently, we demonstrate that for $q\ge 2$ and $n\le q^{\ell/2-1}$, the number of profile vectors is at least $q^{\kappa n}$ with $\kappa$ very close to one.In addition to enumeration results, we provide a set of efficient encoding and decoding algorithms for each of two particular families of profile vectors.

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Zuling Chang, Johan Chrisnata, Martianus Frederic Ezerman, Han Mao Kiah. 2016-07-08. Rates of DNA Sequence Profiles for Practical Values of Read Lengths. https://arxiv.org/abs/1607.02279

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