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Reconstructing the evolutionary history of a set of species is a central task in computational biology. In real data, it is often the case that some information is missing: the Incomplete Directed Perfect Phylogeny (IDPP) problem asks,…
We transform the problem of solving linear system of equations $A\mathbf{x}=\mathbf{b}$ to a problem of finding the right singular vector with singular value zero of an augmented matrix $C$, and present two quantum algorithms for solving…
The Optimal Morse Matching (OMM) problem asks for a discrete gradient vector field on a simplicial complex that minimizes the number of critical simplices. It is NP-hard and has been studied extensively in heuristic, approximation, and…
Quantum state tomography (QST) is one of the fundamental problems in quantum information. Among various metrics, sample complexity is widely used to evaluate QST algorithms. While multi-copy measurements are known to achieve optimal sample…
Quantum computers provide an opportunity to efficiently sample from probability distributions that include non-trivial interference effects between amplitudes. Using a simple process wherein all possible state histories can be specified by…
Approximate Pattern Matching is among the most fundamental string-processing tasks. Given a text $T$ of length $n$, a pattern $P$ of length $m$, and a threshold $k$, the task is to identify the fragments of $T$ that are at distance at most…
In this paper we consider the problem of computing an mRNA sequence of maximal similarity for a given mRNA of secondary structure constraints, introduced by Backofen et al. in [BNS02] denoted as the MRSO problem. The problem is known to be…
Binary neural networks (BNNs) have been widely adopted to reduce the computational cost and memory storage on edge-computing devices by using one-bit representation for activations and weights. However, as neural networks become…
Quantum algorithms for graph problems are considered, both in the adjacency matrix model and in an adjacency list-like array model. We give almost tight lower and upper bounds for the bounded error quantum query complexity of Connectivity,…
This paper proposes a quasi-binary encoding based algorithm for solving a specific quadratic optimization models with discrete variables, in the quantum approximate optimization algorithm (QAOA) framework. The quadratic optimization model…
We give a simple, greedy $O(n^{\omega+0.5})=O(n^{2.872})$-time algorithm to list-decode planted cliques in a semirandom model introduced in [CSV17] (following [FK01]) that succeeds whenever the size of the planted clique is $k\geq…
The binary paint shop problem (BPSP) is an APX-hard optimization problem of the automotive industry. In this work, we show how to use the Quantum Approximate Optimization Algorithm (QAOA) to find solutions of the BPSP and demonstrate that…
In the era of Noisy Intermediate-Scale Quantum (NISQ) computers it is crucial to design quantum algorithms which do not require many qubits or deep circuits. Unfortunately, the most well-known quantum algorithms are too demanding to be run…
We give a 2-approximation algorithm for the Maximum Agreement Forest problem on two rooted binary trees. This NP-hard problem has been studied extensively in the past two decades, since it can be used to compute the rooted Subtree…
In this paper, we study quantum algorithms for computing the exact value of the treewidth of a graph. Our algorithms are based on the classical algorithm by Fomin and Villanger (Combinatorica 32, 2012) that uses $O(2.616^n)$ time and…
Minimum Spanning Trees are a well-studied subset of graph problems. While classical algorithms have existed to solve these problems for decades, new variations and application areas are constantly being discovered. When dealing with large…
We give a quantum algorithm for solving the Bounded Distance Decoding (BDD) problem with a subexponential approximation factor on a class of integer lattices. The quantum algorithm uses a well-known but challenging-to-use quantum state on…
The study of genetic map linearization leads to a combinatorial hard problem, called the {\em minimum breakpoint linearization} (MBL) problem. It is aimed at finding a linearization of a partial order which attains the minimum breakpoint…
We present a quantum algorithm for multiplying two $n$-bit integers with overall circuit depth and $T$-depth both bounded by $O(\log^{2} n)$, while using $O(n^{2})$ gates and ancillary qubits. Our construction generates partial products via…
Given a set of points in the Euclidean plane, the Euclidean \textit{$\delta$-minimum spanning tree} ($\delta$-MST) problem is the problem of finding a spanning tree with maximum degree no more than $\delta$ for the set of points such the…