Related papers: Sequence Reconstruction Problem for Ternary Deleti…
Correcting insertions/deletions as well as substitution errors simultaneously plays an important role in DNA-based storage systems as well as in classical communications. This paper deals with the fundamental task of constructing codes that…
With the emergence of new storage and communication methods, the insertion, deletion, and substitution (IDS) channel has attracted considerable attention. However, many topics on the IDS channel and the associated Levenshtein distance…
Although the sequence-to-sequence (encoder-decoder) model is considered the state-of-the-art in deep learning sequence models, there is little research into using this model for recovering missing sensor data. The key challenge is that the…
The classical problem in network coding theory considers communication over multicast networks. Multiple transmitters send independent messages to multiple receivers which decode the same set of messages. In this work, computation over…
A line of work has looked at the problem of recovering an input from distance queries. In this setting, there is an unknown sequence $s \in \{0,1\}^{\leq n}$, and one chooses a set of queries $y \in \{0,1\}^{\mathcal{O}(n)}$ and receives…
A permutation code is a nonlinear code whose codewords are permutation of a set of symbols. We consider the use of permutation code in the deletion channel, and consider the symbol-invariant error model, meaning that the values of the…
In this paper, we consider a synchronization problem between nodes $A$ and $B$ that are connected through a two--way communication channel. {Node $A$} contains a binary file $X$ of length $n$ and {node $B$} contains a binary file $Y$ that…
We address the problem of reconstructing a set of points on a line or a loop from their unassigned noisy pairwise distances. When the points lie on a line, the problem is known as the turnpike; when they are on a loop, it is known as the…
Most DNA sequencing technologies are based on the shotgun paradigm: many short reads are obtained from random unknown locations in the DNA sequence. A fundamental question, studied in arXiv:1203.6233, is what read length and coverage depth…
We consider the following graph reconstruction problem: given an unweighted connected graph $G = (V,E)$ with visible vertex set $V$ and an oracle which takes two vertices $u,v \in V$ and returns the shortest path distance between $u$ and…
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,…
Given a threshold $L$ and a set $\mathcal{R} = \{R_1, \ldots, R_m\}$ of $m$ haplotype sequences, each having length $n$, the minimum segmentation problem for founder reconstruction is to partition the sequences into disjoint segments…
The deletion channel is the simplest point-to-point communication channel that models lack of synchronization. Input bits are deleted independently with probability d, and when they are not deleted, they are not affected by the channel.…
We consider the locally repairable codes (LRC), aiming at sequential recovering multiple erasures. We define the (n,k,r,t)-SLRC (Sequential Locally Repairable Codes) as an [n,k] linear code where any t'(>= t) erasures can be sequentially…
The advancement of sensing technology has driven the widespread application of high-dimensional data. However, issues such as missing entries during acquisition and transmission negatively impact the accuracy of subsequent tasks. Tensor…
DNA has immense potential as an emerging data storage medium. The principle of DNA storage is the conversion and flow of digital information between binary code stream, quaternary base, and actual DNA fragments. This process will inevitably…
Inferring the exact parameters of a neural network with only query access is an NP-Hard problem, with few practical existing algorithms. Solutions would have major implications for security, verification, interpretability, and understanding…
We present a method for the reconstruction of networks, based on the order of nodes visited by a stochastic branching process. Our algorithm reconstructs a network of minimal size that ensures consistency with the data. Crucially, we show…
This paper investigates the problem of correcting multiple criss-cross insertions and deletions in arrays. More precisely, we study the unique recovery of $n \times n$ arrays affected by $t$-criss-cross deletions defined as any combination…
We consider the problem of constructing binary codes to recover from $k$-bit deletions with efficient encoding/decoding, for a fixed $k$. The single deletion case is well understood, with the Varshamov-Tenengolts-Levenshtein code from 1965…