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Protein activity is a significant characteristic for recombinant proteins which can be used as biocatalysts. High activity of proteins reduces the cost of biocatalysts. A model that can predict protein activity from amino acid sequence is…

Quantitative Methods · Quantitative Biology 2018-07-23 X. Han , X. Wang , K. Zhou

Machine learning models are increasingly used in many engineering fields thanks to the widespread digital data, growing computing power, and advanced algorithms. Artificial neural networks (ANN) is the most popular machine learning model in…

Materials Science · Physics 2020-10-20 Xin Liu , Su Tian , Fei Tao , Haodong Du , Wenbin Yu

Plasticity, the ability of a neural network to quickly change its predictions in response to new information, is essential for the adaptability and robustness of deep reinforcement learning systems. Deep neural networks are known to lose…

Machine Learning · Computer Science 2023-11-28 Clare Lyle , Zeyu Zheng , Evgenii Nikishin , Bernardo Avila Pires , Razvan Pascanu , Will Dabney

Prediction of material property is a key problem because of its significance to material design and screening. We present a brand-new and general machine learning method for material property prediction. As a representative example, polymer…

Machine Learning · Computer Science 2022-03-01 Zhilong Liang , Zhiwei Li , Shuo Zhou , Yiwen Sun , Changshui Zhang , Jinying Yuan

Deep continual learning requires models to adapt to new tasks without retraining from scratch. However, neural networks can lose their ability to adapt to new tasks after training on previous ones, a phenomenon known as loss of plasticity.…

Machine Learning · Computer Science 2026-05-12 Jiuqi Wang , Jayanth Srinivasa , Claire Chen , Shuze Daniel Liu , Ali Payani , Shangtong Zhang

We review algorithms for protein design in general. Although these algorithms have a rich combinatorial, geometric, and mathematical structure, they are almost never covered in computer science classes. Furthermore, many of these algorithms…

Computational Engineering, Finance, and Science · Computer Science 2019-10-01 Mark A. Hallen , Bruce R. Donald

In recent years, machine learning has been proposed as a promising strategy to build accurate scoring functions for computational docking finalized to numerically empowered drug discovery. However, the latest studies have suggested that…

Quantitative Methods · Quantitative Biology 2023-02-17 F. Pellicani , D. Dal Ben , A. Perali , S. Pilati

Most machine learning techniques are based upon statistical learning theory, often simplified for the sake of computing speed. This paper is focused on the uncertainty aspect of mathematical modeling in machine learning. Regression analysis…

Machine Learning · Computer Science 2022-06-07 Valentin Arkov

Fueled by the widespread adoption of Machine Learning (ML) and the high-throughput screening of materials, the data-centric approach to materials design has asserted itself as a robust and powerful tool for the in-silico prediction of…

Deep generative models that learn from the distribution of natural protein sequences and structures may enable the design of new proteins with valuable functions. While the majority of today's models focus on generating either sequences or…

Biomolecules · Quantitative Biology 2024-10-03 Chentong Wang , Sarah Alamdari , Carles Domingo-Enrich , Ava Amini , Kevin K. Yang

Scientific discoveries are often made by finding a pattern or object that was not predicted by the known rules of science. Oftentimes, these anomalous events or objects that do not conform to the norms are an indication that the rules of…

Machine Learning · Computer Science 2026-02-17 Elizabeth G. Campolongo , Yuan-Tang Chou , Ekaterina Govorkova , Wahid Bhimji , Wei-Lun Chao , Chris Harris , Shih-Chieh Hsu , Hilmar Lapp , Mark S. Neubauer , Josephine Namayanja , Aneesh Subramanian , Philip Harris , Advaith Anand , David E. Carlyn , Subhankar Ghosh , Christopher Lawrence , Eric Moreno , Ryan Raikman , Jiaman Wu , Ziheng Zhang , Bayu Adhi , Mohammad Ahmadi Gharehtoragh , Saúl Alonso Monsalve , Marta Babicz , Furqan Baig , Namrata Banerji , William Bardon , Tyler Barna , Tanya Berger-Wolf , Adji Bousso Dieng , Micah Brachman , Quentin Buat , David C. Y. Hui , Phuong Cao , Franco Cerino , Yi-Chun Chang , Shivaji Chaulagain , An-Kai Chen , Deming Chen , Eric Chen , Chia-Jui Chou , Zih-Chen Ciou , Miles Cochran-Branson , Artur Cordeiro Oudot Choi , Michael Coughlin , Matteo Cremonesi , Maria Dadarlat , Peter Darch , Malina Desai , Daniel Diaz , Steven Dillmann , Javier Duarte , Isla Duporge , Urbas Ekka , Saba Entezari Heravi , Hao Fang , Rian Flynn , Geoffrey Fox , Emily Freed , Hang Gao , Jing Gao , Julia Gonski , Matthew Graham , Abolfazl Hashemi , Scott Hauck , James Hazelden , Joshua Henry Peterson , Duc Hoang , Wei Hu , Mirco Huennefeld , David Hyde , Vandana Janeja , Nattapon Jaroenchai , Haoyi Jia , Yunfan Kang , Maksim Kholiavchenko , Elham E. Khoda , Sangin Kim , Aditya Kumar , Bo-Cheng Lai , Trung Le , Chi-Wei Lee , JangHyeon Lee , Shaocheng Lee , Suzan van der Lee , Charles Lewis , Haitong Li , Haoyang Li , Henry Liao , Mia Liu , Xiaolin Liu , Xiulong Liu , Vladimir Loncar , Fangzheng Lyu , Ilya Makarov , Abhishikth Mallampalli , Chen-Yu Mao , Alexander Michels , Alexander Migala , Farouk Mokhtar , Mathieu Morlighem , Min Namgung , Andrzej Novak , Andrew Novick , Amy Orsborn , Anand Padmanabhan , Jia-Cheng Pan , Sneh Pandya , Zhiyuan Pei , Ana Peixoto , George Percivall , Alex Po Leung , Sanjay Purushotham , Zhiqiang Que , Melissa Quinnan , Arghya Ranjan , Dylan Rankin , Christina Reissel , Benedikt Riedel , Dan Rubenstein , Argyro Sasli , Eli Shlizerman , Arushi Singh , Kim Singh , Eric R. Sokol , Arturo Sorensen , Yu Su , Mitra Taheri , Vaibhav Thakkar , Ann Mariam Thomas , Eric Toberer , Chenghan Tsai , Rebecca Vandewalle , Arjun Verma , Ricco C. Venterea , He Wang , Jianwu Wang , Sam Wang , Shaowen Wang , Gordon Watts , Jason Weitz , Andrew Wildridge , Rebecca Williams , Scott Wolf , Yue Xu , Jianqi Yan , Jai Yu , Yulei Zhang , Haoran Zhao , Ying Zhao , Yibo Zhong

Improving algorithms via predictions is a very active research topic in recent years. This paper initiates the systematic study of mechanism design in this model. In a number of well-studied mechanism design settings, we make use of…

Computer Science and Game Theory · Computer Science 2023-01-13 Chenyang Xu , Pinyan Lu

Machine learning techniques have been widely employed as effective tools in addressing various engineering challenges in recent years, particularly for the challenging task of microstructure-informed materials modeling. This work provides a…

Materials Science · Physics 2024-05-29 Xiang-Long Peng , Mozhdeh Fathidoost , Binbin Lin , Yangyiwei Yang , Bai-Xiang Xu

Machine Learning explainability techniques have been proposed as a means of `explaining' or interrogating a model in order to understand why a particular decision or prediction has been made. Such an ability is especially important at a…

Machine Learning · Statistics 2022-02-28 Matthew J. Vowels

Machine learning has achieved remarkable success in many applications. However, existing studies are largely based on the closed-world assumption, which assumes that the environment is stationary, and the model is fixed once deployed. In…

Machine Learning · Computer Science 2025-06-24 Fei Zhu , Shijie Ma , Zhen Cheng , Xu-Yao Zhang , Zhaoxiang Zhang , Dacheng Tao , Cheng-Lin 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…

Material scientists are increasingly adopting the use of machine learning (ML) for making potentially important decisions, such as, discovery, development, optimization, synthesis and characterization of materials. However, despite ML's…

Computational Physics · Physics 2019-03-12 Bhavya Kailkhura , Brian Gallagher , Sookyung Kim , Anna Hiszpanski , T. Yong-Jin Han

The goal of machine learning is to provide solutions which are trained by data or by experience coming from the environment. Many training algorithms exist and some brilliant successes were achieved. But even in structured environments for…

Adaptation and Self-Organizing Systems · Physics 2011-09-06 Wolfgang Konen

The application of machine learning in sciences has seen exciting advances in recent years. As a widely applicable technique, anomaly detection has been long studied in the machine learning community. Especially, deep neural nets-based…

Machine Learning · Statistics 2023-11-03 Taoli Cheng

Machine learning algorithms can now outperform classic economic models in predicting quantities ranging from bargaining outcomes, to choice under uncertainty, to an individual's future jobs and wages. Yet this predictive accuracy comes at a…

Theoretical Economics · Economics 2025-08-27 Annie Liang
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