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Stochastic simulation is a widely used method for estimating quantities in models of chemical reaction networks where uncertainty plays a crucial role. However, reducing the statistical uncertainty of the corresponding estimators requires…

Quantitative Methods · Quantitative Biology 2019-06-13 Michael Backenköhler , Luca Bortolussi , Verena Wolf

Partial model checking was proposed by Andersen in 1995 to verify a temporal logic formula compositionally on a composition of processes. It consists in incrementally incorporating into the formula the behavioural information taken from one…

Logic in Computer Science · Computer Science 2015-07-01 Frédéric Lang , Radu Mateescu

We consider the problem of generating randomized control sequences for complex networked systems typically actuated by human agents. Our approach leverages a concept known as control improvisation, which is based on a combination of…

Systems and Control · Computer Science 2016-11-18 Ilge Akkaya , Daniel J. Fremont , Rafael Valle , Alexandre Donzé , Edward A. Lee , Sanjit A. Seshia

Large language models (LLMs) suffer from high inference latency due to the auto-regressive decoding process. Speculative decoding accelerates inference by generating multiple draft tokens using a lightweight model and verifying them in…

Machine Learning · Computer Science 2025-05-27 Yixuan Wang , Yijun Liu , Shiyu ji , Yuzhuang Xu , Yang Xu , Qingfu Zhu , Wanxiang Che

Modern Machine Learning (ML) applications often benefit from structured sparsity, a technique that efficiently reduces model complexity and simplifies handling of sparse data in hardware. Sparse systolic tensor arrays - specifically…

Hardware Architecture · Computer Science 2025-04-29 Christodoulos Peltekis , Chrysostomos Nicopoulos , Giorgos Dimitrakopoulos

This chapter provides a brief introduction to the theory and practice of spatial stochastic simulations. It begins with an overview of different methods available for biochemical simulations highlighting their strengths and limitations.…

Quantitative Methods · Quantitative Biology 2018-10-02 Sanjana Gupta , Jacob Czech , Robert Kuczewski , Thomas M. Bartol , Terrence J. Sejnowski , Robin E. C. Lee , James R. Faeder

Networks are difficult to configure correctly, and tricky to debug. These problems are accentuated by temporal and stateful behavior. Static verification, while useful, is ineffectual for detecting behavioral deviations induced by hardware…

Networking and Internet Architecture · Computer Science 2016-07-18 Tim Nelson , Nicholas DeMarinis , Timothy Adam Hoff , Rodrigo Fonseca , Shriram Krishnamurthi

For continuous-time Markov chains, the model-checking problem with respect to continuous-time stochastic logic (CSL) has been introduced and shown to be decidable by Aziz, Sanwal, Singhal and Brayton in 1996. Their proof can be turned into…

Logic in Computer Science · Computer Science 2015-07-01 Lijun Zhang , David N. Jansen , Flemming Nielson , Holger Hermanns

Bisimulation metrics are powerful tools for measuring similarities between stochastic processes, and specifically Markov chains. Recent advances have uncovered that bisimulation metrics are, in fact, optimal-transport distances, which has…

Machine Learning · Computer Science 2025-05-26 Sergio Calo , Anders Jonsson , Gergely Neu , Ludovic Schwartz , Javier Segovia-Aguas

Large language models (LLMs) are increasingly used in applications requiring factual accuracy, yet their outputs often contain hallucinated responses. While fact-checking can mitigate these errors, existing methods typically retrieve…

Computation and Language · Computer Science 2026-01-07 Haoran Wang , Maryam Khalid , Qiong Wu , Jian Gao , Cheng Cao

Inspired by recent successes with parallel optimization techniques for solving Boolean satisfiability, we investigate a set of strategies and heuristics that aim to leverage parallel computing to improve the scalability of neural network…

Logic in Computer Science · Computer Science 2020-08-24 Haoze Wu , Alex Ozdemir , Aleksandar Zeljić , Ahmed Irfan , Kyle Julian , Divya Gopinath , Sadjad Fouladi , Guy Katz , Corina Pasareanu , Clark Barrett

Generative Large Language Models (LLMs) based on the Transformer architecture have recently emerged as a dominant foundation model for a wide range of Natural Language Processing tasks. Nevertheless, their application in real-time scenarios…

Computation and Language · Computer Science 2024-01-04 Coleman Hooper , Sehoon Kim , Hiva Mohammadzadeh , Hasan Genc , Kurt Keutzer , Amir Gholami , Sophia Shao

Recent years have seen substantial advances in the development of biofunctional materials using synthetic polymers. The growing problem of elusive sequence-functionality relations for most biomaterials has driven researchers to seek more…

Quantitative Methods · Quantitative Biology 2022-07-06 Yun Zhou , Boying Gong , Tao Jiang , Ting Xu , Haiyan Huang

With the development of Large Language Models (LLMs), numerous benchmarks have been proposed to measure and compare the capabilities of different LLMs. However, evaluating LLMs is costly due to the large number of test instances and their…

Computation and Language · Computer Science 2025-04-15 Xu-Xiang Zhong , Chao Yi , Han-Jia Ye

State-machine replication, a fundamental approach to fault tolerance, requires replicas to execute commands deterministically, which usually results in sequential execution of commands. Sequential execution limits performance and underuses…

Distributed, Parallel, and Cluster Computing · Computer Science 2014-04-29 Parisa Jalili Marandi , Fernando Pedone

In this work we adopt a statistical mechanics approach to investigate basic, systemic features exhibited by adaptive immune systems. The lymphocyte network made by B-cells and T-cells is modeled by a bipartite spin-glass, where, following…

Cell Behavior · Quantitative Biology 2015-06-04 Elena Agliari , Adriano Barra , Silvia Bartolucci , Andrea Galluzzi , Francesco Guerra , Francesco Moauro

Based on the theory of stochastic chemical kinetics, the inherent randomness and stochasticity of biochemical reaction networks can be accurately described by discrete-state continuous-time Markov chains. The analysis of such processes is,…

Numerical Analysis · Mathematics 2014-10-14 Andreychenko Alexander , Mikeev Linar , Wolf Verena

Multi-sensor state space models underpin fusion applications in networks of sensors. Estimation of latent parameters in these models has the potential to provide highly desirable capabilities such as network self-calibration. Conventional…

Systems and Control · Computer Science 2018-01-04 Murat Uney , Bernard Mulgrew , Daniel E Clark

Ensuring that agents satisfy safety specifications can be crucial in safety-critical environments. While methods exist for controller synthesis with safe temporal specifications, most existing methods restrict safe temporal specifications…

Logic in Computer Science · Computer Science 2025-11-21 Gaspard Ohlmann , Edwin Hamel-De le Court , Francesco Belardinelli

Model checking is a powerful technique for software verification. However, the approach notably suffers from the infamous state space explosion problem. To tackle this, in this paper, we introduce a novel symbolic method for encoding Petri…

Logic in Computer Science · Computer Science 2026-02-04 Damien Morard , Lucas Donati , Didier Buchs
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