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Low-temperature plasmas are partially ionized gases, where ions and neutrals coexist in a highly reactive environment. This creates a rich chemistry, which is often difficult to understand in its full complexity. In this work, we develop a…

Plasma Physics · Physics 2024-09-13 Diogo R. Ferreira , Alexandre Lança , Luís Lemos Alves

We present a method to design driving protocols that achieve fast thermal equilibration of a system of interest using techniques inspired by machine learning training algorithms. For example, consider a Brownian particle manipulated by…

Statistical Mechanics · Physics 2025-06-25 Diego Rengifo , Gabriel Téllez

The Large Hadron Collider at CERN produces immense volumes of complex data from high-energy particle collisions, demanding sophisticated analytical techniques for effective interpretation. Neural Networks, including Graph Neural Networks,…

Understanding the binding specificity between T-cell receptors (TCRs) and peptide-major histocompatibility complexes (pMHCs) is central to immunotherapy and vaccine development. However, current predictive models struggle with…

Quantitative Methods · Quantitative Biology 2025-12-29 Cong Qi , Hanzhang Fang , Siqi jiang , Tianxing Hu , Zhi Wei

While machine learning (ML) models have been able to achieve unprecedented accuracies across various prediction tasks in quantum chemistry, it is now apparent that accuracy on a test set alone is not a guarantee for robust chemical modeling…

Machine learning (ML) models for predicting gas permeability through polymers have traditionally relied on experimental data. While these models exhibit robustness within familiar chemical domains, reliability wanes when applied to new…

Materials Science · Physics 2024-06-24 Brandon K. Phan , Kuan-Hsuan Shen , Rishi Gurnani , Huan Tran , Ryan Lively , Rampi Ramprasad

Modeling of turbulent combustion system requires modeling the underlying chemistry and the turbulent flow. Solving both systems simultaneously is computationally prohibitive. Instead, given the difference in scales at which the two…

Machine Learning · Computer Science 2022-02-22 Amol Salunkhe , Dwyer Deighan , Paul DesJardin , Varun Chandola

Many risk-sensitive applications require Machine Learning (ML) models to be interpretable. Attempts to obtain interpretable models typically rely on tuning, by trial-and-error, hyper-parameters of model complexity that are only loosely…

Machine Learning · Computer Science 2020-05-29 Marco Virgolin , Andrea De Lorenzo , Eric Medvet , Francesca Randone

Machine-learning models have demonstrated great success in learning complex patterns that enable them to make predictions about unobserved data. In addition to using models for prediction, the ability to interpret what a model has learned…

Machine Learning · Statistics 2019-11-15 W. James Murdoch , Chandan Singh , Karl Kumbier , Reza Abbasi-Asl , Bin Yu

Predicting the yield percentage of a chemical reaction is useful in many aspects such as reducing wet-lab experimentation by giving the priority to the reactions with a high predicted yield. In this work we investigated the use of multiple…

Machine Learning · Computer Science 2022-05-02 Shimaa Baraka , Ahmed M. El Kerdawy

Reaction prediction remains one of the major challenges for organic chemistry, and is a pre-requisite for efficient synthetic planning. It is desirable to develop algorithms that, like humans, "learn" from being exposed to examples of the…

Chemical Physics · Physics 2017-06-01 Jennifer N. Wei , David Duvenaud , Alán Aspuru-Guzik

Recently, deep learning models have made great progress in MWP solving on answer accuracy. However, they are uninterpretable since they mainly rely on shallow heuristics to achieve high performance without understanding and reasoning the…

Artificial Intelligence · Computer Science 2022-10-25 Zhicheng Yang , Jinghui Qin , Jiaqi Chen , Liang Lin , Xiaodan Liang

Retrosynthesis is essential for designing synthetic pathways for complex molecules and can be revolutionized by AI to automate and accelerate chemical synthesis planning for drug discovery and materials science. Here, we propose a…

Chemical Physics · Physics 2024-12-02 Seongeun Yun , Won Bo Lee

Deep learning has achieved remarkable success in learning representations for molecules, which is crucial for various biochemical applications, ranging from property prediction to drug design. However, training Deep Neural Networks (DNNs)…

Machine Learning · Computer Science 2023-04-28 Jun Xia , Yanqiao Zhu , Yuanqi Du , Stan Z. Li

The extraction of interactions between chemicals and proteins from several biomedical articles is important in many fields of biomedical research such as drug development and prediction of drug side effects. Several natural language…

Computation and Language · Computer Science 2020-11-05 Dongha Choi , Hyunju Lee

In clinical treatment, identifying potential adverse reactions of drugs can help assist doctors in making medication decisions. In response to the problems in previous studies that features are high-dimensional and sparse, independent…

Quantitative Methods · Quantitative Biology 2024-07-30 Yufeng Li , Wenchao Zhao , Bo Dang , Xu Yan , Weimin Wang , Min Gao , Mingxuan Xiao

Explainable ML for molecular toxicity prediction is a promising approach for efficient drug development and chemical safety. A predictive ML model of toxicity can reduce experimental cost and time while mitigating ethical concerns by…

Quantitative Methods · Quantitative Biology 2022-04-15 Bhanushee Sharma , Vijil Chenthamarakshan , Amit Dhurandhar , Shiranee Pereira , James A. Hendler , Jonathan S. Dordick , Payel Das

The widespread application of machine learning (ML) to the chemical sciences is making it very important to understand how the ML models learn to correlate chemical structures with their properties, and what can be done to improve the…

For the investigation of chemical reaction networks, the efficient and accurate determination of all relevant intermediates and elementary reactions is mandatory. The complexity of such a network may grow rapidly, in particular if reactive…

Chemical Physics · Physics 2016-01-08 Maike Bergeler , Gregor N. Simm , Jonny Proppe , Markus Reiher

We propose a deep learning methodology for multivariate regression that is based on pattern recognition that triggers fast learning over sensor data. We used a conversion of sensors-to-image which enables us to take advantage of Computer…

Computer Vision and Pattern Recognition · Computer Science 2022-03-11 Jiztom Kavalakkatt Francis , Chandan Kumar , Jansel Herrera-Gerena , Kundan Kumar , Matthew J Darr
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