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We study pattern matching problems on two major representations of uncertain sequences used in molecular biology: weighted sequences (also known as position weight matrices, PWM) and profiles (i.e., scoring matrices). In the simple version,…

Data Structures and Algorithms · Computer Science 2016-07-12 Tomasz Kociumaka , Solon P. Pissis , Jakub Radoszewski

We study the percolation and jamming of rods ($k$-mers) on a square lattice that contains defects. The point defects are placed randomly and uniformly on the substrate before deposition of the rods. The general case of unequal probabilities…

Given a strictly increasing sequence $\mathbf{t}$ with entries from $[n]:=\{1,\ldots,n\}$, a parking completion is a sequence $\mathbf{c}$ with $|\mathbf{t}|+|\mathbf{c}|=n$ and $|\{t\in \mathbf{t}\mid t\le i\}|+|\{c\in \mathbf{c}\mid c\le…

A $q$-ary $t$-covering array is an $m \times n$ matrix with entries from $\{0, 1, ..., q-1\}$ with the property that for any $t$ column positions, all $q^t$ possible vectors of length $t$ occur at least once. One wishes to minimize $m$ for…

Combinatorics · Mathematics 2011-11-03 Soohak Choi , Hyun Kwang Kim , Dong Yeol Oh

The concept of jamming has attracted great research interest due to its broad relevance in soft matter such as liquids, glasses, colloids, foams, and granular materials, and its deep connection to the sphere packing problem and optimization…

Soft Condensed Matter · Physics 2021-04-07 Yuliang Jin , Hajime Yoshino

Let $(A_u : u \in \mathbb{B})$ be i.i.d.~non-negative integers that we interpret as car arrivals on the vertices of the full binary tree $ \mathbb{B}$. Each car tries to park on its arrival node, but if it is already occupied, it drives…

Probability · Mathematics 2022-06-02 David Aldous , Alice Contat , Nicolas Curien , Olivier Hénard

In this article, we establish new results on the probabilistic parking model (introduced by Durm\'ic, Han, Harris, Ribeiro, and Yin) with $m$ cars and $n$ parking spots and probability parameter $p\in[0,1]$. For any $ m \leq n$ and $p \in…

Probability · Mathematics 2025-02-04 Pamela E. Harris , Rodrigo Ribeiro , Mei Yin

We recently proved threshold saturation for spatially coupled sparse superposition codes on the additive white Gaussian noise channel. Here we generalize our analysis to a much broader setting. We show for any memoryless channel that…

Information Theory · Computer Science 2016-03-16 Jean Barbier , Mohamad Dia , Nicolas Macris

Partial set cover problem and set multi-cover problem are two generalizations of set cover problem. In this paper, we consider the partial set multi-cover problem which is a combination of them: given an element set $E$, a collection of…

Discrete Mathematics · Computer Science 2019-07-05 Yishuo Shi , Yingli Ran , Zhao Zhang , James Willson , Guangmo Tong , Ding-Zhu Du

Motivated by an application to database linear querying, such as private information-retrieval protocols, we suggest a fundamental property of linear codes -- the generalized covering radius. The generalized covering-radius hierarchy of a…

Information Theory · Computer Science 2020-12-14 Dor Elimelech , Marcelo Firer , Moshe Schwartz

A particularly important substructure in modeling joint linear chance-constrained programs with random right-hand sides and finite sample space is the intersection of mixing sets with common binary variables (and possibly a knapsack…

Optimization and Control · Mathematics 2021-06-30 Fatma Kılınç-Karzan , Simge Küçükyavuz , Dabeen Lee

We consider multi-component matching systems in heavy traffic consisting of $K\geq 2$ distinct perishable components which arrive randomly over time at high speed at the assemble-to-order station, and they wait in their respective queues…

Probability · Mathematics 2024-05-21 Bowen Xie

The Joint Replenishment Problem (JRP) deals with optimizing shipments of goods from a supplier to retailers through a shared warehouse. Each shipment involves transporting goods from the supplier to the warehouse, at a fixed cost C,…

Data Structures and Algorithms · Computer Science 2013-07-10 Marcin Bienkowski , Jaroslaw Byrka , Marek Chrobak , Łukasz Jeż , Jiří Sgall

In this paper, we complete the enumeration of the number of parking functions of length $n$ avoiding, in the sense defined by Qiu and Remmel, a permutation of length 3, answering several questions of Adeniran and Pudwell. Additionally, we…

Combinatorics · Mathematics 2026-05-26 Ben Adenbaum

Disks of two sizes and weights in alternating sequence are confined to a long and narrow channel. The axis of the channel is horizontal and its plane vertical. The channel is closed off by pistons that freeze jammed microstates out of loose…

Soft Condensed Matter · Physics 2022-03-02 Dan Liu , Gerhard Müller

For the problem of binary linear classification and feature selection, we propose algorithmic approaches to classifier design based on the generalized approximate message passing (GAMP) algorithm, recently proposed in the context of…

Information Theory · Computer Science 2015-06-18 Justin Ziniel , Philip Schniter , Per Sederberg

We consider conjunctive queries with arithmetic comparisons (CQAC) and investigate the computational complexity of the problem: Given two CQAC queries, $Q$ and $Q'$, is $Q'$ contained in $Q$? We know that, for CQAC queries, the problem of…

Databases · Computer Science 2026-05-26 Foto N. Afrati , Matthew Damigos

Code Division Multiple Access (CDMA) in which the spreading code assignment to users contains a random element has recently become a cornerstone of CDMA research. The random element in the construction is particular attractive as it…

Disordered Systems and Neural Networks · Physics 2015-05-13 Jack Raymond , David Saad

Disordered jammed packings under confinement have received considerably less attention than their \textit{bulk} counterparts and yet arise in a variety of practical situations. In this work, we study binary sphere packings that are confined…

Statistical Mechanics · Physics 2015-12-31 Duyu Chen , Salvatore Torquato

In this paper we present a new bound obtained with the probabilistic method for the solution of the Set Covering problem with unit costs. The bound is valid for problems of fixed dimension, thus extending previous similar asymptotic…

Combinatorics · Mathematics 2014-07-18 Giovanni Felici , Sokol Ndreca , Aldo Procacci , Benedetto Scoppola