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Dense retrieval requires high-quality text sequence embeddings to support effective search in the representation space. Autoencoder-based language models are appealing in dense retrieval as they train the encoder to output high-quality…
Complex networks hosting binary-state dynamics arise in a variety of contexts. In spite of previous works, to fully reconstruct the network structure from observed binary data remains to be challenging. We articulate a statistical inference…
We consider compact representations of collections of similar strings that support random access queries. The collection of strings is given by a rooted tree where edges are labeled by an edit operation (inserting, deleting, or replacing a…
In this paper, we consider the problem of recovering a sum of filtered Diracs, representing an input with finite rate of innovation (FRI), from its corresponding time encoding machine (TEM) measurements. So far, the recovery was guaranteed…
We consider the zero-error capacity of deletion channels. Specifically, we consider the setting where we choose a codebook ${\cal C}$ consisting of strings of $n$ bits, and our model of the channel corresponds to an adversary who may delete…
This work considers distributed sensing and transmission of sporadic random samples. Lower bounds are derived for the reconstruction error of a single normally or uniformly-distributed finite-dimensional vector imperfectly measured by a…
In this paper we present two algorithms for the following problem: given a string and a rational $e > 1$, detect in the online fashion the earliest occurrence of a repetition of exponent $\ge e$ in the string. 1. The first algorithm…
This paper provides new error bounds on "consistent" reconstruction methods for signals observed from quantized random projections. Those signal estimation techniques guarantee a perfect matching between the available quantized data and a…
Motivated by the sequence reconstruction problem from traces in DNA-based storage, we consider the problem of designing codes for the deletion channel when multiple observations (or traces) are available to the decoder. We propose simple…
Consider an information source generating a symbol at the root of a tree network whose links correspond to noisy communication channels, and broadcasting it through the network. We study the problem of reconstructing the transmitted symbol…
The restoration lemma by Afek, Bremler-Barr, Kaplan, Cohen, and Merritt [Dist. Comp. '02] proves that, in an undirected unweighted graph, any replacement shortest path avoiding a failing edge can be expressed as the concatenation of two…
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…
Regularization of neural machine translation is still a significant problem, especially in low-resource settings. To mollify this problem, we propose regressing word embeddings (ReWE) as a new regularization technique in a system that is…
This study presents a novel model for invertible sentence embeddings using a residual recurrent network trained on an unsupervised encoding task. Rather than the probabilistic outputs common to neural machine translation models, our…
Real-world data often comes in compressed form. Analyzing compressed data directly (without decompressing it) can save space and time by orders of magnitude. In this work, we focus on fundamental sequence comparison problems and try to…
Let M be a random (alpha n) x n matrix of rank r<<n, and assume that a uniformly random subset E of its entries is observed. We describe an efficient algorithm that reconstructs M from |E| = O(rn) observed entries with relative root mean…
We develop and validate a new algorithm called \textit{primary track recovery} (\ptr) that effectively deconvolves known physics and detector effects from nuclear recoil tracks in gas time projection chambers (TPCs) with high-resolution…
We consider a standard distributed optimisation setting where $N$ machines, each holding a $d$-dimensional function $f_i$, aim to jointly minimise the sum of the functions $\sum_{i = 1}^N f_i (x)$. This problem arises naturally in…
In this paper, a new problem of transmitting information over the adversarial insertion-deletion channel with feedback is introduced. Suppose that the encoder transmits $n$ binary symbols one-by-one over a channel, in which some symbols can…
An elastic-degenerate string is a sequence of $n$ finite sets of strings of total length $N$, introduced to represent a set of related DNA sequences, also known as a pangenome. The ED string matching (EDSM) problem consists in reporting all…