Related papers: Coding for Sequence Reconstruction for Single Edit…
The ''trace reconstruction'' problem asks, given an unknown binary string $x$ and a channel that repeatedly returns ''traces'' of $x$ with each bit randomly deleted with some probability $p$, how many traces are needed to recover $x$? There…
An encoder wishes to minimize the bit rate necessary to guarantee that a decoder is able to calculate a symbolwise function of a sequence available only at the encoder and a sequence that can be measured only at the decoder. This classical…
One of the founding results of lattice based cryptography is a quantum reduction from the Short Integer Solution problem to the Learning with Errors problem introduced by Regev. It has recently been pointed out by Chen, Liu and Zhandry that…
In the decades-old Pattern Matching with Edits problem, given a length-$n$ string $T$ (the text), a length-$m$ string $P$ (the pattern), and a positive integer $k$ (the threshold), the task is to list the $k$-error occurrences of $P$ in…
Motivated by applications in in-vivo DNA storage, we study codes for correcting duplications. A reverse-complement duplication of length $k$ is the insertion of the reversed and complemented copy of a substring of length $k$ adjacent to its…
An encoder wishes to minimize the bit rate necessary to guarantee that a decoder is able to calculate a symbol-wise function of a sequence available only at the encoder and a sequence that can be measured only at the decoder. This classical…
Motivated by polymer-based data-storage platforms that use chains of binary synthetic polymers as the recording media and read the content via tandem mass spectrometers, we propose a new family of codes that allows for both unique string…
Nanopore sequencing, superior to other sequencing technologies for DNA storage in multiple aspects, has recently attracted considerable attention. Its high error rates, however, demand thorough research on practical and efficient coding…
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,…
The sequence reconstruction problem asks for the recovery of a sequence from multiple noisy copies, where each copy may contain up to $r$ errors. In the case of permutations on \(n\) letters under the Hamming metric, this problem is closely…
Consider two remote nodes having binary sequences $X$ and $Y$, respectively. $Y$ is an edited version of ${X}$, where the editing involves random deletions, insertions, and substitutions, possibly in bursts. The goal is for the node with…
Motivated by applications in polymer-based data storage, we study the problem of reconstructing a string from part of its composition multiset. We give a full description of the structure of the strings that cannot be uniquely reconstructed…
Motivated by applications to DNA storage, we study reconstruction and list-reconstruction schemes for integer vectors that suffer from limited-magnitude errors. We characterize the asymptotic size of the intersection of error balls in…
The congested clique model is a message-passing model of distributed computation where the underlying communication network is the complete graph of $n$ nodes. In this paper we consider the situation where the joint input to the nodes is an…
We first give a construction of binary $t_1$-deletion-$t_2$-insertion-burst correcting codes with redundancy at most $\log(n)+(t_1-t_2-1)\log\log(n)+O(1)$, where $t_1\ge 2t_2$. Then we give an improved construction of binary codes capable…
The problem of error-control in random linear network coding is considered. A ``noncoherent'' or ``channel oblivious'' model is assumed where neither transmitter nor receiver is assumed to have knowledge of the channel transfer…
In order to provide high data reliability, distributed storage systems disperse data with redundancy to multiple storage nodes. Regenerating codes is a new class of erasure codes to introduce redundancy for the purpose of improving the data…
We study optimal reconstruction codes over the multiple-burst substitution channel. Our main contribution is establishing a trade-off between the error-correction capability of the code, the number of reads used in the reconstruction…
Owing to its several merits over other DNA sequencing technologies, nanopore sequencers hold an immense potential to revolutionize the efficiency of DNA storage systems. However, their higher error rates necessitate further research to…
We investigate the amount of primordial information that can be reconstructed from spectroscopic galaxy surveys, as well as what sets the noise in reconstruction at low wavenumbers, by studying a simplified universe in which galaxies are…