Related papers: New Constructions of Reversible DNA Codes
DNA sequencing technology has advanced to a point where storage is becoming the central bottleneck in the acquisition and mining of more data. Large amounts of data are vital for genomics research, and generic compression tools, while…
Binary cyclic codes are worth studying due to their applications and theoretical importance. It is an important problem to construct an infinite family of cyclic codes with large minimum distance $d$ and dual distance $d^{\perp}$. In recent…
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…
Over the past years, the ever-growing trend on data storage demand, more specifically for "cold" data (rarely accessed data), has motivated research for alternative systems of data storage. Because of its biochemical characteristics,…
Constant dimension codes, with a prescribed minimum distance, have found recently an application in network coding. All the codewords in such a code are subspaces of $\F_q^n$ with a given dimension. A computer search for large constant…
Reconstruction codes are generalizations of error-correcting codes that can correct errors by a given number of noisy reads. The study of such codes was initiated by Levenshtein in 2001 and developed recently due to applications in modern…
Over the past years, the ever-growing trend on data storage demand, more specifically for "cold" data (i.e. rarely accessed), has motivated research for alternative systems of data storage. Because of its biochemical characteristics,…
Maximum-distance separable (MDS) convolutional codes form an optimal family of convolutional codes, the study of which is of great importance. There are very few general algebraic constructions of MDS convolutional codes. In this paper, we…
We study asymptotic lower and upper bounds for the sizes of constant dimension codes with respect to the subspace or injection distance, which is used in random linear network coding. In this context we review known upper bounds and show…
Due to its higher data density, longevity, energy efficiency, and ease of generating copies, DNA is considered a promising storage technology for satisfying future needs. However, a diverse set of errors including deletions, insertions,…
Modern biological science produces vast amounts of genomic sequence data. This is fuelling the need for efficient algorithms for sequence compression and analysis. Data compression and the associated techniques coming from information…
A basic problem for constant dimension codes is to determine the maximum possible size $A_q(n,d;k)$ of a set of $k$-dimensional subspaces in $\mathbb{F}_q^n$, called codewords, such that the subspace distance satisfies…
In this paper, necessary and sufficient conditions for the reversibility of a cyclic code of arbitrary length over a finite commutative chain ring have been derived. MDS reversible cyclic codes having length p^s over a finite chain ring…
Motivated by DNA storage in living organisms, and by known biological mutation processes, we study the reverse-complement string-duplication system. We fully classify the conditions under which the system has full expressiveness, for all…
Quantum convolutional codes can be used to protect a sequence of qubits of arbitrary length against decoherence. In this paper, we give two new constructions of quantum MDS convolutional codes derived from generalized Reed-Solomon codes and…
We propose generative neural network methods to generate DNA sequences and tune them to have desired properties. We present three approaches: creating synthetic DNA sequences using a generative adversarial network; a DNA-based variant of…
We apply a new approach to the reverse protein folding problem. Our method uses a minimization function in the design process which is different from the energy function used for folding. For a lattice model, we show that this new approach…
Locally repairable codes which are optimal with respect to the bound presented by Prakash et al. are considered. New upper bounds on the length of such optimal codes are derived. The new bounds both improve and generalize previously known…
As the global need for large-scale data storage is rising exponentially, existing storage technologies are approaching their theoretical and functional limits in terms of density and energy consumption, making DNA based storage a potential…
In a DNA sequence, we have the celebrated Watson-Crick complement $\overline{T}=A$, $\overline{A}=T$, $\overline{C}=G$, and $\overline{G}=C$. Given an integer $m\ge 2$, a secondary structure in a DNA sequence refers to the existence of two…