Related papers: Mutually Uncorrelated Codes for DNA Storage
Ternary channels can be used to model the behavior of some memory devices, where information is stored in three different levels. In this paper, error correcting coding for a ternary channel where some of the error transitions are not…
For $q$-ary $n$-sequences, we develop the concept of similarity functions that can be used (for $q=4$) to model a thermodynamic similarity on DNA sequences. A similarity function is identified by the length of a longest common subsequence…
Motivated by comparative genomics, Chen et al. [9] introduced the Maximum Duo-preservation String Mapping (MDSM) problem in which we are given two strings $s_1$ and $s_2$ from the same alphabet and the goal is to find a mapping $\pi$…
Composite DNA is a recent novel method to increase the information capacity of DNA-based data storage above the theoretical limit of 2 bits/symbol. In this method, every composite symbol does not store a single DNA nucleotide but a mixture…
Caching is an efficient way to reduce network traffic congestion during peak hours by storing some content at the users' local caches. For the shared-link network with end-user-caches, Maddah-Ali and Niesen proposed a two-phase coded…
Cyclic codes and their various generalizations, such as quasi-twisted (QT) codes, have a special place in algebraic coding theory. Among other things, many of the best-known or optimal codes have been obtained from these classes. In this…
As a result of their applications in network coding, space-time coding, and coding for criss-cross errors, matrix codes have garnered significant attention; in various contexts, these codes have also been termed rank-metric codes,…
In this paper, we propose {\em distributed network compression via memory}. We consider two spatially separated sources with correlated unknown source parameters. We wish to study the universal compression of a sequence of length $n$ from…
In DNA-based data storage, DNA codes with biochemical constraints and error correction are designed to protect data reliability. Single-stranded DNA sequences with secondary structure avoidance (SSA) help to avoid undesirable secondary…
Linear constraints for a matrix polytope with no fractional vertex are investigated as intersecting research among permutation codes, rank modulations, and linear programming methods. By focusing the discussion to the block structure of…
The ability to store data in the DNA of a living organism has applications in a variety of areas including synthetic biology and watermarking of patented genetically-modified organisms. Data stored in this medium is subject to errors…
An $(m,n,a,b)$-tensor code consists of $m\times n$ matrices whose columns satisfy `$a$' parity checks and rows satisfy `$b$' parity checks (i.e., a tensor code is the tensor product of a column code and row code). Tensor codes are useful in…
Reliability is an inherent challenge for the emerging nonvolatile technology of racetrack memories, and there exists a fundamental relationship between codes designed for racetrack memories and codes with constrained periodicity. Previous…
Constant-dimension codes have recently received attention due to their significance to error control in noncoherent random network coding. In this paper, we show that constant-rank codes are closely related to constant-dimension codes and…
Encoding data as a set of unordered strings is receiving great attention as it captures one of the basic features of DNA storage systems. However, the challenge of constructing optimal redundancy codes for this channel remained elusive. In…
We investigate the problem of coded caching for nonuniform demands when the structured clique cover algorithm proposed by Maddah-Ali and Niesen for decentralized caching is used for delivery. We apply this algorithm to all user demands…
Data storage in DNA is developing as a possible solution for archival digital data. Recently, to further increase the potential capacity of DNA-based data storage systems, the combinatorial composite DNA synthesis method was suggested. This…
Traditional error-correcting codes (ECCs) assume a fixed message length, but many scenarios involve ongoing or indefinite transmissions where the message length is not known in advance. For example, when streaming a video, the user should…
We investigate the construction of prefix-free and fix-free codes with specified codeword compositions. We present a polynomial time algorithm which constructs a fix-free code with the same codeword compositions as a given code for a…
Coded caching utilizes proper file subpacketization and coded delivery to make full use of the multicast opportunities in content delivery, to alleviate file transfer load in massive content delivery scenarios. Most existing work considers…