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We extend the traditional framework of steady state energy transduction -- typically characterized by a single input and output -- to multi-resource transduction in open chemical reaction networks (CRNs). Transduction occurs when…

分子网络 · 定量生物学 2025-07-24 Massimo Bilancioni , Massimiliano Esposito

Cataloging the complex behaviors of dynamical systems can be challenging, even when they are well-described by a simple mechanistic model. If such a system is of limited analytical tractability, brute force simulation is often the only…

机器学习 · 计算机科学 2023-01-04 Hunter Elliott

The radiation hydrodynamic code CO5BOLD has been supplemented with the time-dependent treatment of chemical reaction networks. Advection of particle densities due to the hydrodynamic flow field is also included. The radiative transfer is…

天体物理学 · 物理学 2009-11-10 S. Wedemeyer-Boehm , I. Kamp , J. Bruls , B. Freytag

Understanding the emergent behavior of chemical reaction networks (CRNs) is a fundamental aspect of biology and its origin from inanimate matter. A closed CRN monotonically tends to thermal equilibrium, but when it is opened to external…

分子网络 · 定量生物学 2024-05-16 Masanari Shimada , Pegah Behrad , Eric De Giuli

The increasing integration of renewable energy sources results in fluctuations in carbon intensity throughout the day. To mitigate their carbon footprint, datacenters can implement demand response (DR) by adjusting their load based on grid…

分布式、并行与集群计算 · 计算机科学 2023-11-16 Jiali Xing , Bilge Acun , Aditya Sundarrajan , David Brooks , Manoj Chakkaravarthy , Nikky Avila , Carole-Jean Wu , Benjamin C. Lee

Both natural and synthetic chemical systems not only exhibit a range of non-trivial dynamics, but also transition between qualitatively different dynamical behaviours as environmental parameters change. Such transitions are called…

分子网络 · 定量生物学 2026-02-03 Alexander Dack , Tomislav Plesa , Thomas E. Ouldridge

We consider linear elimination of variables in steady state equations of a chemical reaction network. Particular subsets of variables corresponding to sets of so-called reactant-noninteracting species, are introduced. The steady state…

分子网络 · 定量生物学 2018-07-03 Meritxell Sáez , Carsten Wiuf , Elisenda Feliu

Chemical reaction systems are dynamical systems that arise in chemical engineering and systems biology. In this work, we consider the question of whether the minimal (in a precise sense) multistationary chemical reaction networks, which we…

动力系统 · 数学 2012-07-10 Badal Joshi , Anne Shiu

Removing the undesired reflections from images taken through the glass is of broad application to various computer vision tasks. Non-learning based methods utilize different handcrafted priors such as the separable sparse gradients caused…

计算机视觉与模式识别 · 计算机科学 2018-05-31 Renjie Wan , Boxin Shi , Ling-Yu Duan , Ah-Hwee Tan , Alex C. Kot

This paper focuses on jointly inferring network and community structures from the dynamics of complex systems. Although many approaches have been designed to solve these two problems solely, none of them consider explicit shareable…

社会与信息网络 · 计算机科学 2024-10-28 Kai Wu , Chao Wang , Junyuan Chen , Jing Liu

Carbon matching aims to improve corporate carbon accounting by tracking emissions rather than energy consumption and production. We present a mathematical derivation of carbon matching using marginal emission rates, where the unit of…

最优化与控制 · 数学 2025-11-26 Nikky Avila , Hank He , Reza Rastegar , Jamie Tolan , Tobias Tiecke , Brian White

This study introduces a liquid-fueled reactor network (LFRN) framework for reduced-order modeling of gas turbine combustors. The proposed LFRN extends conventional gaseous-fueled reactor network methods by incorporating specialized reactors…

流体动力学 · 物理学 2025-10-16 Philip John , Sourav Saha , Opeoluwa Owoyele

Large-scale network systems describe a wide class of complex dynamical systems composed of many interacting subsystems. A large number of subsystems and their high-dimensional dynamics often result in highly complex topology and dynamics,…

最优化与控制 · 数学 2021-02-02 Xiaodong Cheng , Jacquelien M. A. Scherpen , Harry L. Trentelman

Cycles, which can be found in many different kinds of networks, make the problems more intractable, especially when dealing with dynamical processes on networks. On the contrary, tree networks in which no cycle exists, are simplifications…

物理与社会 · 物理学 2021-04-07 Wenjun Zhang , Wei Li , Weibing Deng

Chemical reaction networks (CRNs) provide a convenient language for modelling a broad variety of biological systems. These models are commonly studied with respect to the time series they generate in deterministic or stochastic simulations.…

分子网络 · 定量生物学 2019-07-11 Ozan Kahramanoğulları

Network systems consist of subsystems and their interconnections, and provide a powerful framework for analysis, modeling and control of complex systems. However, subsystems may have high-dimensional dynamics, and the amount and nature of…

最优化与控制 · 数学 2020-12-07 Xiaodong Cheng , Jacquelien M. A. Scherpen

Building a carbon-neutral world needs to remove the excess CO$_2$ that has already been dumped into the atmosphere. The sea, soil, vegetation, and rocks on Earth all naturally uptake CO$_2$ from the atmosphere. Human beings can accelerate…

化学物理 · 物理学 2022-11-03 Gahyun Annie Lee , Xiaoyang Shi , Ah-Hyung Alissa Park

Various biological system models have been proposed in systems biology, which are based on the complex biological reactions kinetic of various components. These models are not practical because we lack of kinetic information. In this paper,…

定量方法 · 定量生物学 2011-02-19 Weidong Huang , Chundu Wu , Bingjia Xiao , Weidong Xia

Multistationary chemical reaction networks are of interest to scientists and mathematicians alike. While some criteria for multistationarity exist, obtaining explicit reaction rates and steady states that exhibit multistationarity for a…

动力系统 · 数学 2016-04-22 Bryan Félix , Anne Shiu , Zev Woodstock

Biochemical networks are used in computational biology, to model the static and dynamical details of systems involved in cell signaling, metabolism, and regulation of gene expression. Parametric and structural uncertainty, as well as…

分子网络 · 定量生物学 2014-10-15 Ovidiu Radulescu , Alexander N. Gorban , Andrei Zinovyev , Vincent Noel