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The rise and fall of artificial neural networks is well documented in the scientific literature of both computer science and computational chemistry. Yet almost two decades later, we are now seeing a resurgence of interest in deep learning,…

Machine Learning · Statistics 2018-08-15 Garrett B. Goh , Nathan O. Hodas , Abhinav Vishnu

Deep learning is transforming many areas in science, and it has great potential in modeling molecular systems. However, unlike the mature deployment of deep learning in computer vision and natural language processing, its development in…

Computational Physics · Physics 2021-03-19 Jun Zhang , Yao-Kun Lei , Zhen Zhang , Junhan Chang , Maodong Li , Xu Han , Lijiang Yang , Yi Isaac Yang , Yi Qin Gao

The use of machine learning is becoming increasingly common in computational materials science. To build effective models of the chemistry of materials, useful machine-based representations of atoms and their compounds are required. We…

Materials Science · Physics 2021-08-02 Luis M. Antunes , Ricardo Grau-Crespo , Keith T. Butler

Molecular representation learning (MRL) is a key step to build the connection between machine learning and chemical science. In particular, it encodes molecules as numerical vectors preserving the molecular structures and features, on top…

Quantitative Methods · Quantitative Biology 2023-11-30 Zhichun Guo , Kehan Guo , Bozhao Nan , Yijun Tian , Roshni G. Iyer , Yihong Ma , Olaf Wiest , Xiangliang Zhang , Wei Wang , Chuxu Zhang , Nitesh V. Chawla

Recently supervised machine learning has been ascending in providing new predictive approaches for chemical, biological and materials sciences applications. In this Perspective we focus on the interplay of machine learning algorithm with…

Geometric deep learning (GDL), which is based on neural network architectures that incorporate and process symmetry information, has emerged as a recent paradigm in artificial intelligence. GDL bears particular promise in molecular modeling…

Chemical Physics · Physics 2022-01-03 Kenneth Atz , Francesca Grisoni , Gisbert Schneider

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

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

With a focus on natural language processing (NLP) and the role of large language models (LLMs), we explore the intersection of machine learning, deep learning, and artificial intelligence. As artificial intelligence continues to…

Political science, and social science in general, have traditionally been using computational methods to study areas such as voting behavior, policy making, international conflict, and international development. More recently, increasingly…

Computation and Language · Computer Science 2020-05-15 Kakia Chatsiou , Slava Jankin Mikhaylov

Text-based representations of chemicals and proteins can be thought of as unstructured languages codified by humans to describe domain-specific knowledge. Advances in natural language processing (NLP) methodologies in the processing of…

Biomolecules · Quantitative Biology 2020-02-17 Hakime Öztürk , Arzucan Özgür , Philippe Schwaller , Teodoro Laino , Elif Ozkirimli

Scientific progress is tightly coupled to the emergence of new research tools. Today, machine learning (ML)-especially deep learning (DL)-has become a transformative instrument for quantum science and technology. Owing to the intrinsic…

Quantum Physics · Physics 2025-08-15 Timothy Heightman , Marcin Płodzień

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…

The development of artificial intelligence (AI) techniques has brought revolutionary changes across various realms. In particular, the use of AI-assisted methods to accelerate chemical research has become a popular and rapidly growing…

Chemical Physics · Physics 2025-08-05 Hu Ding , Pengxiang Hua , Zhen Huang

Deep learning has significantly accelerated drug discovery, with 'chemical language' processing (CLP) emerging as a prominent approach. CLP learns from molecular string representations (e.g., Simplified Molecular Input Line Entry Systems…

Biomolecules · Quantitative Biology 2025-01-13 Rıza Özçelik , Francesca Grisoni

Recent years have witnessed the fast development of machine learning potentials (MLPs) and their widespread applications in chemistry, physics, and material science. By fitting discrete ab initio data faithfully to continuous and…

Chemical Physics · Physics 2025-05-13 Junfan Xia , Yaolong Zhang , Bin Jiang

This chapter is a preprint from our book by , focusing on leveraging machine learning (ML) in chemical and polyolefin manufacturing optimization. It's crafted for both novices and seasoned professionals keen on the latest ML applications in…

Machine Learning · Computer Science 2024-01-23 Niket Sharma , Y. A. Liu

High-throughput data generation methods and machine learning (ML) algorithms have given rise to a new era of computational materials science by learning relationships among composition, structure, and properties and by exploiting such…

Natural Language Processing (NLP) helps empower intelligent machines by enhancing a better understanding of the human language for linguistic-based human-computer communication. Recent developments in computational power and the advent of…

Computation and Language · Computer Science 2021-03-02 Amirsina Torfi , Rouzbeh A. Shirvani , Yaser Keneshloo , Nader Tavaf , Edward A. Fox

Deep Learning has been shown to learn efficient representations for structured data such as image, text or audio. In this chapter, we present neural network architectures that are able to learn efficient representations of molecules and…

Computational Physics · Physics 2018-12-13 Kristof T. Schütt , Alexandre Tkatchenko , Klaus-Robert Müller
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