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Chemical reactions occur in energy, environmental, biological, and many other natural systems, and the inference of the reaction networks is essential to understand and design the chemical processes in engineering and life sciences. Yet,…

Molecular Networks · Quantitative Biology 2021-01-22 Weiqi Ji , Sili Deng

Chemical Reaction Neural Networks (CRNNs) have emerged as an interpretable machine learning framework for discovering reaction kinetics directly from data, while strictly adhering to the Arrhenius and mass action laws. However, standard…

Chemical Physics · Physics 2026-05-15 Benjamin C. Koenig , Sili Deng

To effectively simulate the combustion of hydrocarbon-fueled supersonic engines, such as rocket-based combined cycle (RBCC) engines, a detailed mechanism for chemistry is usually required but computationally prohibitive. In order to…

Fluid Dynamics · Physics 2020-03-03 Jian An , Guo Qiang He , Kai Hong Luo , Fei Qin , Bing Liu

In aerospace applications, multiple safety regulations were introduced to address associated with pyrolysis. Predictive modeling of pyrolysis is a challenging task since multiple thermo-chemo-mechanical laws need to be concurrently solved…

Soft Condensed Matter · Physics 2022-09-26 Aref Ghaderi , Ramin Akbari , Yang Chen , Roozbeh Dargazany

Ammonia is a promising zero-carbon fuel for industrial and transport applications, but its combustion is hindered by flame instabilities, incomplete oxidation, and the formation of nitrogen oxides. Accurate and detailed kinetic models are…

Understanding and prediction of the chemical reactions are fundamental demanding in the study of many complex chemical systems. Reactive molecular dynamics (MD) simulation has been widely used for this purpose as it can offer atomic details…

Chemical Physics · Physics 2020-11-12 Jinzhe Zeng , Liqun Cao , Mingyuan Xu , Tong Zhu , John ZH Zhang

Physics-based models of dynamical systems are often used to study engineering and environmental systems. Despite their extensive use, these models have several well-known limitations due to simplified representations of the physical…

Machine Learning · Computer Science 2020-09-15 Xiaowei Jia , Jared Willard , Anuj Karpatne , Jordan S Read , Jacob A Zwart , Michael Steinbach , Vipin Kumar

We propose a unified framework that allows for the full mechanistic reconstruction of chemical reaction networks (CRNs) from concentration data. The framework utilizes an integral formulation of the differential equations governing the…

Numerical Analysis · Mathematics 2026-02-13 Abraham Reyes-Velazquez , Stefan Güttel , Igor Larrosa , Jonas Latz

Deep learning is a potential approach to automatically develop kinetic models from experimental data. We propose a deep neural network model of KiNet to represent chemical kinetics. KiNet takes the current composition states and predicts…

Computational Physics · Physics 2021-08-03 Weiqi Ji , Sili Deng

This paper proposes a physics-guided recurrent neural network model (PGRNN) that combines RNNs and physics-based models to leverage their complementary strengths and improve the modeling of physical processes. Specifically, we show that a…

Computational Physics · Physics 2019-02-01 Xiaowei Jia , Jared Willard , Anuj Karpatne , Jordan Read , Jacob Zwart , Michael Steinbach , Vipin Kumar

Achieving clean combustion systems is crucial in terms of solving environmental impacts, decarbonization needs and sustainability matters. Traditional combustion modeling techniques via computational fluid dynamics with accurate chemical…

Fluid Dynamics · Physics 2025-09-11 Mahmood Mousavi , Caleb Caldwell , Jacob Baltes , Muteb Aljasem , Bok Jik Lee

Coarse-grained modeling in molecular simulations serves not only to extend accessible time and length scales beyond atomistic limits, but also to reduce high-dimensional chemical data to low-dimensional representations that expose the…

Chemical Physics · Physics 2026-05-19 Michael N. Sakano , Alejandro Strachan

Wildland fires pose a terrifying natural hazard, underscoring the urgent need to develop data-driven and physics-informed digital twins for wildfire prevention, monitoring, intervention, and response. In this direction of research, this…

Machine Learning · Computer Science 2024-11-18 Konstantinos Vogiatzoglou , Costas Papadimitriou , Vasilis Bontozoglou , Konstantinos Ampountolas

This work contributes to advancing sustainable energy and waste management strategies by investigating the thermochemical conversion of food-based biomass through pyrolysis, highlighting the role of artificial intelligence (AI) in enhancing…

Machine Learning · Computer Science 2026-01-15 Sana Kordoghli , Abdelhakim Settar , Oumayma Belaati , Mohammad Alkhatib , Khaled Chetehouna , Zakaria Mansouri

This paper is concerned with programming adaptive linear neural networks (ALNNs) using chemical reaction networks (CRNs) equipped with mass-action kinetics. Through individually programming the forward propagation and the backpropagation of…

Dynamical Systems · Mathematics 2022-04-14 Yuzhen Fan , Xiaoyu Zhang , Chuanhou Gao

Coarse graining techniques play an essential role in accelerating molecular simulations of systems with large length and time scales. Theoretically grounded bottom-up models are appealing due to their thermodynamic consistency with the…

Computational Physics · Physics 2022-11-01 Blake R. Duschatko , Jonathan Vandermause , Nicola Molinari , Boris Kozinsky

Wildfire prediction has become increasingly crucial due to the escalating impacts of climate change. Traditional CNN-based wildfire prediction models struggle with handling missing oceanic data and addressing the long-range dependencies…

Machine Learning · Computer Science 2024-02-13 Dayou Chen , Sibo Cheng , Jinwei Hu , Matthew Kasoar , Rossella Arcucci

Network models are widely used as structural summaries of biochemical systems. Statistical estimation of networks is usually based on linear or discrete models. However, the dynamics of these systems are generally nonlinear, suggesting that…

Applications · Statistics 2014-06-03 C. J. Oates , F. Dondelinger , N. Bayani , J. Korola , J. W. Gray , S. Mukherjee

In our earlier work, we introduced the concept of Gene Regulatory Neural Network (GRNN), which utilizes natural neural network-like structures inherent in biological cells to perform computing tasks using chemical inputs. We define this…

Neural and Evolutionary Computing · Computer Science 2024-03-14 Samitha Somathilaka , Adrian Ratwatte , Sasitharan Balasubramaniam , Mehmet Can Vuran , Witawas Srisa-an , Pietro Liò

Atomistic or ab-initio molecular dynamics simulations are widely used to predict thermodynamics and kinetics and relate them to molecular structure. A common approach to go beyond the time- and length-scales accessible with such…

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