Related papers: Bounds for DNA codes with constant GC-content
In this paper, we construct linear codes over $\mathbb{Z}_4$ with bounded $GC$-content. The codes are obtained using a greedy algorithm over $\mathbb{Z}_4$. Further, upper and lower bounds are derived for the maximum size of DNA codes of…
DNA codes have many applications, such as in data storage, DNA computing, etc. Good DNA codes have large sizes and satisfy some certain constraints. In this paper, we present a new construction method for reversible DNA codes. We show that…
Upper bounds on the maximum number of codewords in a binary code of a given length and minimum Hamming distance are considered. New bounds are derived by a combination of linear programming and counting arguments. Some of these bounds…
Let $A(n,d)$ (respectively $A(n,d,w)$) be the maximum possible number of codewords in a binary code (respectively binary constant-weight $w$ code) of length $n$ and minimum Hamming distance at least $d$. By adding new linear constraints to…
DNA storage has emerged as an important area of research. The reliability of DNA storage system depends on designing the DNA strings (called DNA codes) that are sufficiently dissimilar. In this work, we introduce DNA codes that satisfy a…
Let $A(n, d)$ denote the maximum size of a binary code of length $n$ and minimum Hamming distance $d$. Studying $A(n, d)$, including efforts to determine it as well to derive bounds on $A(n, d)$ for large $n$'s, is one of the most…
For any given alphabet of size $q$, a Homopolymer Free code (HF code) refers to an $(n, M, d)_q$ code of length $n$, size $M$ and minimum Hamming distance $d$, where all the codewords are homopolymer free sequences. For any given alphabet,…
A constant weight binary code consists of $n$-bit binary codewords, each with exactly $w$ bits equal to 1, such that any two codewords are at least Hamming distance $d$ apart. $A(n,d,w)$ is the maximum size of a constant weight binary code…
The design of large libraries of oligonucleotides having constant GC-content and satisfying Hamming distance constraints between oligonucleotides and their Watson-Crick complements is important in reducing hybridization errors in DNA…
In this paper, we give upper bounds on the sizes of $(d, L)$ list-decodable codes in the Hamming metric space from covering codes with the covering radius smaller than or equal to $d$. When the list size $L$ is $1$, this gives many new…
The Johnson-type upper bound on the maximum size of a code of length $n$, distance $d=2w-1$ and constant composition ${\overline{w}}$ is $\lfloor\dfrac{n}{w_1}\rfloor$, where $w$ is the total weight and $w_1$ is the largest component of…
In this paper, we present a novel design strategy of DNA codes with length $3n$ over the non-chain ring $R=\mathbb{Z}_4+u\mathbb{Z}_4+u^2\mathbb{Z}_4$ with $64$ elements and $u^3=1$, where $n$ denotes the length of a code over $R$. We first…
A permutation array(or code) of length $n$ and distance $d$, denoted by $(n,d)$ PA, is a set of permutations $C$ from some fixed set of $n$ elements such that the Hamming distance between distinct members $\mathbf{x},\mathbf{y}\in C$ is at…
The process of DNA-based data storage (DNA storage for short) can be mathematically modelled as a communication channel, termed DNA storage channel, whose inputs and outputs are sets of unordered sequences. To design error correcting codes…
The study of constant-weight codes in $\ell_1$-metric was motivated by the duplication-correcting problem for data storage in live DNA. It is interesting to determine the maximum size of a code given the length $n$, weight $w$, minimum…
Let $N(d,d^\perp)$ denote the minimum length $n$ of a linear code $C$ with $d$ and $d^{\bot}$, where $d$ is the minimum Hamming distance of $C$ and $d^{\bot}$ is the minimum Hamming distance of $C^{\bot}$. In this paper, we show a lower…
The minimum distance of expander codes over GF(q) is studied. A new upper bound on the minimum distance of expander codes is derived. The bound is shown to lie under the Varshamov-Gilbert (VG) bound while q >= 32. Lower bounds on the…
Let $A_q(n,d)$ be the maximum order (maximum number of codewords) of a $q$-ary code of length $n$ and Hamming distance at least $d$. And let $A(n,d,w)$ that of a binary code of constant weight $w$. Building on results from algebraic graph…
DNA strings and their properties are widely studied since last 20 years due to its applications in DNA computing. In this area, one designs a set of DNA strings (called DNA code) which satisfies certain thermodynamic and combinatorial…
We show tight bounds for online Hamming distance computation in the cell-probe model with word size w. The task is to output the Hamming distance between a fixed string of length n and the last n symbols of a stream. We give a lower bound…