反应系统的反应挖掘

IF 1.7 4区 计算机科学 Q3 COMPUTER SCIENCE, ARTIFICIAL INTELLIGENCE
Artur Męski, Maciej Koutny, Łukasz Mikulski, Wojciech Penczek
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引用次数: 0

摘要

反应系统是一种计算处理的形式化模型,其中反应在实体(分子)集合上运行,为处理生化系统的定性问题提供了一个框架。本文关注的反应系统中,实体可以具有离散的浓度,因此反应是在多集而非实体集上进行的。由此产生的框架允许人们处理反应系统的定量问题,而定制的线性时间时间逻辑允许人们表达和验证一系列关键的行为系统属性。在实际应用中,具有离散浓度的反应系统可能只有部分指定,而对缺失细节进行有效自动计算的可能性提供了一种极具吸引力的设计方法。基于这一想法,本文讨论了参数反应系统,其参数代表了假设反应的未知部分。本文提供了参数反应系统的 smt 编码,并概述了基于有界模型检查的合成程序,以解决合成问题。本文还报告了初步的实验结果,证明了新合成方法的可行性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Reaction mining for reaction systems

Reaction mining for reaction systems

Reaction systems are a formal model for computational processing in which reactions operate on sets of entities (molecules) providing a framework for dealing with qualitative aspects of biochemical systems. This paper is concerned with reaction systems in which entities can have discrete concentrations, and so reactions operate on multisets rather than sets of entities. The resulting framework allows one to deal with quantitative aspects of reaction systems, and a bespoke linear-time temporal logic allows one to express and verify a wide range of key behavioural system properties. In practical applications, a reaction system with discrete concentrations may only be partially specified, and the possibility of an effective automated calculation of the missing details provides an attractive design approach. With this idea in mind, the current paper discusses parametric reaction systems with parameters representing unknown parts of hypothetical reactions. The main result is a method aimed at replacing the parameters in such a way that the resulting reaction system operating in a specified external environment satisfies a given temporal logic formula.This paper provides an encoding of parametric reaction systems in smt, and outlines a synthesis procedure based on bounded model checking for solving the synthesis problem. It also reports on the initial experimental results demonstrating the feasibility of the novel synthesis method.

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来源期刊
Natural Computing
Natural Computing Computer Science-Computer Science Applications
CiteScore
4.40
自引率
4.80%
发文量
49
审稿时长
3 months
期刊介绍: The journal is soliciting papers on all aspects of natural computing. Because of the interdisciplinary character of the journal a special effort will be made to solicit survey, review, and tutorial papers which would make research trends in a given subarea more accessible to the broad audience of the journal.
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