Related papers: Capacity-Approaching Constrained Codes with Error …
Nanopore sequencing is an emerging new technology for sequencing DNA, which can read long fragments of DNA (~50,000 bases) in contrast to most current short-read sequencing technologies which can only read hundreds of bases. While nanopore…
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…
The biochemical processes underlying DNA data storage, including synthesis, amplification, and sequencing, are inherently noisy. Consequently, base-level insertion, deletion, and substitution (IDS) errors, as well as sequence-level…
Next-generation wireless communication systems impose much stricter requirements for transmission rate, latency, and reliability. The peak data rate of 6G networks should be no less than 1 Tb/s, which is comparable to existing long-haul…
Error correction codes are a crucial part of the physical communication layer, ensuring the reliable transfer of data over noisy channels. The design of optimal linear block codes capable of being efficiently decoded is of major concern,…
In a distributed information application an encoder compresses an arbitrary vector while a similar reference vector is available to the decoder as side information. For the Hamming-distance similarity measure, and when guaranteed perfect…
Encoding information in combinations of pre-synthesised deoxyribonucleic acid (DNA) strands (referred to as motifs) is an interesting approach to DNA storage that could potentially circumvent the prohibitive costs of…
We demonstrate that error correcting codes (ECCs) can be used to construct a labeled data set for finetuning of "trainable" communication systems without sacrificing resources for the transmission of known symbols. This enables adaptive…
Motivation: Next-generation sequencing tools have enabled producing of huge amount of genomic information at low cost. Unfortunately, presence of sequencing errors in such data affects quality of downstream analyzes. Accuracy of them can be…
Regenerating codes provide an efficient way to recover data at failed nodes in distributed storage systems. It has been shown that regenerating codes can be designed to minimize the per-node storage (called MSR) or minimize the…
The design of block codes for short information blocks (e.g., a thousand or less information bits) is an open research problem that is gaining relevance thanks to emerging applications in wireless communication networks. In this paper, we…
This paper studies the haplotype assembly problem from an information theoretic perspective. A haplotype is a sequence of nucleotide bases on a chromosome, often conveniently represented by a binary string, that differ from the bases in the…
Enzymatic DNA labeling is a powerful tool with applications in biochemistry, molecular biology, biotechnology, medical science, and genomic research. This paper contributes to the evolving field of DNA-based data storage by presenting a…
In various wireless systems, such as sensor RFID networks and body area networks with implantable devices, the transmitted signals are simultaneously used both for information transmission and for energy transfer. In order to satisfy the…
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,…
We show that errors in data transmitted through linear codes can be thought of as codewords of minimum weight of new linear codes. To determine errors we can then use methods specific to finding such special codewords. One of these methods…
Due to its longevity and enormous information density, DNA is an attractive medium for archival data storage. Thanks to rapid technological advances, DNA storage is becoming practically feasible, as demonstrated by a number of experimental…
This paper proposes a novel deep learning-based error correction coding scheme for AWGN channels under the constraint of one-bit quantization in the receivers. Specifically, it is first shown that the optimum error correction code that…
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…
This paper examines linear binary codes capable of correcting one or more errors. For the single-error-correcting case, it is shown that the Hamming bound is achieved by a constructive method, and an exact expression for the minimal…