Related papers: Trace reconstruction with varying deletion probabi…
The sequence reconstruction problem was proposed by Levenshtein in 2001. In this model, a sequence from a code is transmitted over several channels, and the decoder receives the distinct outputs from each channel. The main problem is to…
A matrix is given in ``shredded'' form if we are presented with the multiset of rows and the multiset of columns, but not told which row is which or which column is which. The matrix is reconstructible if it is uniquely determined by this…
Optimal reconstruction of a source sequence from multiple noisy traces corrupted by random insertions, deletions, and substitutions typically requires joint processing of all traces, leading to computational complexity that grows…
This paper tackles two problems that fall under the study of coding for insertions and deletions. These problems are motivated by several applications, among them is reconstructing strands in DNA-based storage systems. Under this paradigm,…
Consider a binary word being transmitted through a communication channel that introduces deletable errors where each bit of the word is either retained, flipped, erased or deleted. The simplest code for correcting \emph{all} possible…
The problem of string reconstruction from substring information has found many applications due to its relevance in DNA- and polymer-based data storage. One practically important and challenging paradigm requires reconstructing mixtures of…
The problem of reconstructing a string from its error-prone copies, the trace reconstruction problem, was introduced by Vladimir Levenshtein two decades ago. While there has been considerable theoretical work on trace reconstruction,…
In the Levenshtein's sequence reconstruction problem a codeword is transmitted through $N$ channels and in each channel a set of errors is introduced to the transmitted word. In previous works, the restriction that each channel provides a…
Transmit a codeword $x$, that belongs to an $(\ell-1)$-deletion-correcting code of length $n$, over a $t$-deletion channel for some $1\le \ell\le t<n$. Levenshtein, in 2001, proposed the problem of determining $N(n,\ell,t)+1$, the minimum…
The sequence reconstruction problem, introduced by Levenshtein in 2001, considers a communication scenario where the sender transmits a codeword from some codebook and the receiver obtains multiple noisy reads of the codeword. Motivated by…
In this paper, we investigate the problem of designing $(n, N; \mathcal{B})$-reconstruction codes for $N\in \{14,11,9,5\}$, where $\mathcal{B}$ is the single-deletion single-substitution ball function that maps a sequence to the set of all…
Let $G$ be a $3$-connected ordered graph with $n$ vertices and $m$ edges. Let $\mathbf{p}$ be a randomly chosen mapping of these $n$ vertices to the integer range $\{1, 2,3, \ldots, 2^b\}$ for $b\ge m^2$. Let $\ell$ be the vector of $m$…
We study the problem of reconstructing a hidden graph given access to a distance oracle. We design randomized algorithms for the following problems: reconstruction of a degree bounded graph with query complexity $\tilde{O}(n^{3/2})$;…
The sequence reconstruction problem for insertion/deletion channels has attracted significant attention owing to their applications recently in some emerging data storage systems, such as racetrack memories, DNA-based data storage. Our goal…
The problem called "String reconstruction from substrings" is a mathematical model of sequencing by hybridization that plays an important role in DNA sequencing. In this problem, we are given a blackbox oracle holding an unknown string…
This paper considers the problem of inferring the structure of a network from indirect observations. Each observation (a "trace") is the unordered set of nodes which are activated along a path through the network. Since a trace does not…
In this work, we study the Biclique-Free Vertex Deletion problem: Given a graph $G$ and integers $k$ and $i \le j$, find a set of at most $k$ vertices that intersects every (not necessarily induced) biclique $K_{i, j}$ in $G$. This is a…
The problem of reconstructing strings from substring information has found many applications due to its importance in genomic data sequencing and DNA- and polymer-based data storage. One practically important and challenging paradigm…
We introduce a new variant of the $k$-deck problem, which in its traditional formulation asks for determining the smallest $k$ that allows one to reconstruct any binary sequence of length $n$ from the multiset of its $k$-length…
This paper studies reconstruction of strings based upon their substrings spectrum. Under this paradigm, it is assumed that all substrings of some fixed length are received and the goal is to reconstruct the string. While many existing works…