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In this review, we highlight recent developments in the application of machine learning for molecular modeling and simulation. After giving a brief overview of the foundations, components, and workflow of a typical supervised learning…

Data Analysis, Statistics and Probability · Physics 2019-02-21 Mojtaba Haghighatlari , Johannes Hachmann

Machine learning (ML) is transforming all areas of science. The complex and time-consuming calculations in molecular simulations are particularly suitable for a machine learning revolution and have already been profoundly impacted by the…

Chemical Physics · Physics 2019-11-11 Frank Noé , Alexandre Tkatchenko , Klaus-Robert Müller , Cecilia Clementi

Deep learning, a branch of artificial intelligence, is a data-driven method that uses multiple layers of interconnected units or neurons to learn intricate patterns and representations directly from raw input data. Empowered by this…

Machine Learning · Computer Science 2025-07-28 Mohd Halim Mohd Noor , Ayokunle Olalekan Ige

Advances in molecular technologies underlie an enormous growth in the size of data sets pertaining to biology and biomedicine. These advances parallel those in the deep learning subfield of machine learning. Components in the differentiable…

Quantitative Methods · Quantitative Biology 2024-06-14 Alex Jihun Lee , Reza Abbasi-Asl

From computer vision and speech recognition to forecasting trajectories in autonomous vehicles, deep learning approaches are at the forefront of so many domains. Deep learning models are developed using plethora of high-level, generic…

Machine Learning · Computer Science 2021-05-07 Hamid Tabani , Ajay Balasubramaniam , Elahe Arani , Bahram Zonooz

Advancements in genomic research such as high-throughput sequencing techniques have driven modern genomic studies into "big data" disciplines. This data explosion is constantly challenging conventional methods used in genomics. In parallel…

Genomics · Quantitative Biology 2023-10-06 Tianwei Yue , Yuanxin Wang , Longxiang Zhang , Chunming Gu , Haoru Xue , Wenping Wang , Qi Lyu , Yujie Dun

Machine Learning algorithms have had a profound impact on the field of computer science over the past few decades. These algorithms performance is greatly influenced by the representations that are derived from the data in the learning…

With the development of computer-assisted techniques, research communities including biochemistry and deep learning have been devoted into the drug discovery field for over a decade. Various applications of deep learning have drawn great…

Machine Learning · Computer Science 2023-03-07 Wenhao Hu , Yingying Liu , Xuanyu Chen , Wenhao Chai , Hangyue Chen , Hongwei Wang , Gaoang Wang

Machine learning is finding increasingly broad application in the physical sciences. This most often involves building a model relationship between a dependent, measurable output and an associated set of controllable, but complicated,…

Computational Physics · Physics 2018-08-29 Brian K. Spears

Over the past few years, we have seen fundamental breakthroughs in core problems in machine learning, largely driven by advances in deep neural networks. At the same time, the amount of data collected in a wide array of scientific domains…

Machine Learning · Computer Science 2020-03-27 Maithra Raghu , Eric Schmidt

The application of deep learning in robotics leads to very specific problems and research questions that are typically not addressed by the computer vision and machine learning communities. In this paper we discuss a number of…

Signal processing traditionally relies on classical statistical modeling techniques. Such model-based methods utilize mathematical formulations that represent the underlying physics, prior information and additional domain knowledge. Simple…

Signal Processing · Electrical Eng. & Systems 2023-06-08 Nir Shlezinger , Yonina C. Eldar

Deep learning has become a powerful tool in computational biology, revolutionising the analysis and interpretation of biological data over time. In our article review, we delve into various aspects of deep learning in computational biology.…

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

Decision making algorithms are used in a multitude of different applications. Conventional approaches for designing decision algorithms employ principled and simplified modelling, based on which one can determine decisions via tractable…

Signal Processing · Electrical Eng. & Systems 2022-06-23 Nir Shlezinger , Yonina C. Eldar , Stephen P. Boyd

Deep learning is catalyzing a scientific revolution fueled by big data, accessible toolkits, and powerful computational resources, impacting many fields including protein structural modeling. Protein structural modeling, such as predicting…

Biomolecules · Quantitative Biology 2020-07-17 Wenhao Gao , Sai Pooja Mahajan , Jeremias Sulam , Jeffrey J. Gray

Deep learning has received extensive research interest in developing new medical image processing algorithms, and deep learning based models have been remarkably successful in a variety of medical imaging tasks to support disease detection…

Computer Vision and Pattern Recognition · Computer Science 2022-04-12 Xuxin Chen , Ximin Wang , Ke Zhang , Kar-Ming Fung , Theresa C. Thai , Kathleen Moore , Robert S. Mannel , Hong Liu , Bin Zheng , Yuchen Qiu

This paper tries to give a gentle introduction to deep learning in medical image processing, proceeding from theoretical foundations to applications. We first discuss general reasons for the popularity of deep learning, including several…

Computer Vision and Pattern Recognition · Computer Science 2018-12-24 Andreas Maier , Christopher Syben , Tobias Lasser , Christian Riess

Neural network models can now recognise images, understand text, translate languages, and play many human games at human or superhuman levels. These systems are highly abstracted, but are inspired by biological brains and use only…

Neurons and Cognition · Quantitative Biology 2019-03-06 Katherine R. Storrs , Nikolaus Kriegeskorte

Molecular dynamics simulations are an important tool for describing the evolution of a chemical system with time. However, these simulations are inherently held back either by the prohibitive cost of accurate electronic structure theory…

Chemical Physics · Physics 2018-12-20 Michael Gastegger , Philipp Marquetand
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