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Mass spectrometry (MS) based omics data analysis require significant time and resources. To date, few parallel algorithms have been proposed for deducing peptides from mass spectrometry-based data. However, these parallel algorithms were…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-08-12 Fahad Saeed , Muhammad Haseeb , SS Iyengar

In several emerging technologies for computer memory (main memory), the cost of reading is significantly cheaper than the cost of writing. Such asymmetry in memory costs poses a fundamentally different model from the RAM for algorithm…

Data Structures and Algorithms · Computer Science 2016-08-30 Guy E. Blelloch , Jeremy T. Fineman , Phillip B. Gibbons , Yan Gu , Julian Shun

Computing the simulation preorder of a given Kripke structure (i.e., a directed graph with $n$ labeled vertices) has crucial applications in model checking of temporal logic. It amounts to solving a specific two-players reachability game,…

Computational Complexity · Computer Science 2016-08-31 Massimo Cairo , Romeo Rizzi

Factorization and multiplication of dense matrices and tensors are critical, yet extremely expensive pieces of the scientific toolbox. Careful use of low rank approximation can drastically reduce the computation and memory requirements of…

Performance · Computer Science 2023-11-15 Sameer Deshmukh , Rio Yokota , George Bosilca

Barrett's algorithm is one of the most widely used methods for performing modular multiplication, a critical nonlinear operation in modern privacy computing techniques such as homomorphic encryption (HE) and zero-knowledge proofs (ZKP).…

Cryptography and Security · Computer Science 2025-11-06 Haomin Li , Fangxin Liu , Chenyang Guan , Zongwu Wang , Li Jiang , Haibing Guan

The matricized-tensor times Khatri-Rao product computation is the typical bottleneck in algorithms for computing a CP decomposition of a tensor. In order to develop high performance sequential and parallel algorithms, we establish…

Distributed, Parallel, and Cluster Computing · Computer Science 2017-10-24 Grey Ballard , Nicholas Knight , Kathryn Rouse

We prove lower bounds on the number of product gates in bilinear and quadratic circuits that compute the product of two $n \cross n$ matrices over finite fields. In particular we obtain the following results: 1. We show that the number of…

Computational Complexity · Computer Science 2007-05-23 Amir Shpilka

Matrix multiplication is a fundamental kernel in high performance computing. Many algorithms for fast matrix multiplication can only be applied to enormous matrices ($n>10^{100}$) and thus cannot be used in practice. Of all algorithms…

Data Structures and Algorithms · Computer Science 2025-08-05 Oded Schwartz , Eyal Zwecher

Reducing communication - either between levels of a memory hierarchy or between processors over a network - is a key component of performance optimization (in both time and energy) for many problems, including dense linear algebra, particle…

Data Structures and Algorithms · Computer Science 2020-03-03 Grace Dinh , James Demmel

We study the algorithmic problem of multiplying large matrices that are rectangular. We prove that the method that has been used to construct the fastest algorithms for rectangular matrix multiplication cannot give algorithms with…

Computational Complexity · Computer Science 2025-11-10 Matthias Christandl , François Le Gall , Vladimir Lysikov , Jeroen Zuiddam

Min-plus matrix multiplication is used in many problems operating on distances in graphs or solvable by dynamic programming. Assuming the APSP hypothesis, there is no subcubic-time algorithm for the min-plus product of two general $n\times…

Data Structures and Algorithms · Computer Science 2025-07-08 Paweł Gawrychowski , Egor Gorbachev , Tomasz Kociumaka

We study matrix-matrix multiplication of two matrices, $A$ and $B$, each of size $n \times n$. This operation results in a matrix $C$ of size $n\times n$. Our goal is to produce $C$ as efficiently as possible given a cache: a 1-D limited…

Data Structures and Algorithms · Computer Science 2023-11-15 Neil Bhavikatti

A model of computation that is widely used in the formal analysis of reactive systems is symbolic algorithms. In this model the access to the input graph is restricted to consist of symbolic operations, which are expensive in comparison to…

Data Structures and Algorithms · Computer Science 2017-11-28 Krishnendu Chatterjee , Wolfgang Dvořák , Monika Henzinger , Veronika Loitzenbauer

We prove lower bounds of order $n\log n$ for both the problem to multiply polynomials of degree $n$, and to divide polynomials with remainder, in the model of bounded coefficient arithmetic circuits over the complex numbers. These lower…

Computational Complexity · Computer Science 2007-05-23 Peter Buergisser , Martin Lotz

Matrix multiplication is a fundamental computation in many scientific disciplines. In this paper, we show that novel fast matrix multiplication algorithms can significantly outperform vendor implementations of the classical algorithm and…

Distributed, Parallel, and Cluster Computing · Computer Science 2018-01-08 Austin R. Benson , Grey Ballard

Flash memories intended for SSD and mobile applications need to provide high random I/O performance. This requires using efficient schemes for reading small chunks of data (e.g. 0.5KB - 4KB) from random addresses. Furthermore, in order to…

Information Theory · Computer Science 2012-03-01 Eran Sharon , Idan Alrod

Matrix multiplication is a core operation in numerous applications, yet its exact computation becomes prohibitively expensive as data scales, especially in streaming environments where timeliness is critical. In many real-world scenarios,…

Data Structures and Algorithms · Computer Science 2025-02-26 Haoming Xian , Qintian Guo , Jun Zhang , Sibo Wang

In his breakthrough paper, Raz showed that any parity learning algorithm requires either quadratic memory or an exponential number of samples [FOCS'16, JACM'19]. A line of work that followed extended this result to a large class of learning…

Machine Learning · Computer Science 2023-10-13 Xin Lyu , Avishay Tal , Hongxun Wu , Junzhao Yang

In this paper, we study the algebraic formula complexity of multiplying $d$ many $2\times 2$ matrices, denoted $\mathrm{IMM}_{d}$, and show that the well-known divide-and-conquer algorithm cannot be significantly improved at any depth, as…

Computational Complexity · Computer Science 2017-10-17 Suryajith Chillara , Nutan Limaye , Srikanth Srinivasan

Matrix computations are a fundamental building-block of edge computing systems, with a major recent uptick in demand due to their use in AI/ML training and inference procedures. Existing approaches for distributing matrix computations…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-08-12 Anindya Bijoy Das , Aditya Ramamoorthy , David J. Love , Christopher G. Brinton