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In the context of optimization approaches to engineering applications, time-consuming simulations are often utilized which can be configured to deliver solutions for various levels of accuracy, commonly referred to as different fidelity…

Computational Engineering, Finance, and Science · Computer Science 2022-05-17 Sander van Rijn , Sebastian Schmitt , Matthijs van Leeuwen , Thomas Bäck

Effective properties of materials with random heterogeneous structures are typically determined by homogenising the mechanical quantity of interest in a window of observation. The entire problem setting encompasses the solution of a local…

Numerical Analysis · Mathematics 2021-10-22 Felipe Rocha , Simone Deparis , Pablo Antolin , Annalisa Buffa

In system analysis and design optimization, multiple computational models are typically available to represent a given physical system. These models can be broadly classified as high-fidelity models, which provide highly accurate…

Machine Learning · Computer Science 2024-11-01 Ruda Zhang , Negin Alemazkoor

Despite the great popularity of virtual screening of existing compound libraries, the search for new potential drug candidates also takes advantage of generative protocols, where new compound suggestions are enumerated using various…

Biomolecules · Quantitative Biology 2023-12-22 Tomasz Danel , Jan Łęski , Sabina Podlewska , Igor T. Podolak

A multi-fidelity regression model is proposed for combining multiple datasets with different fidelities, particularly abundant low-fidelity data and scarce high-fidelity observations. The model builds upon recent multi-fidelity frameworks…

Fluid Dynamics · Physics 2023-11-21 Mohammad Hossein Saadat

This paper puts forward an integrated microstructure design methodology that replaces the common existing design approaches: 1) reconstruction of microstructures, 2) analyzing and quantifying material properties, and 3) inverse design of…

Materials Science · Physics 2023-07-18 Kang-Hyun Lee , Hyoung Jun Lim , Gun Jin Yun

With the advancing capabilities of computational methodologies and resources, ultra-large-scale virtual screening via molecular docking has emerged as a prominent strategy for in silico hit discovery. Given the exhaustive nature of…

Machine Learning · Computer Science 2024-06-21 Jeonghyeon Kim , Juno Nam , Seongok Ryu

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

The field of drug discovery hinges on the accurate prediction of binding affinity between prospective drug molecules and target proteins, especially when such proteins directly influence disease progression. However, estimating binding…

High-fidelity numerical simulations of partial differential equations (PDEs) given a restricted computational budget can significantly limit the number of parameter configurations considered and/or time window evaluated for modeling a given…

Machine Learning · Computer Science 2023-09-04 Paolo Conti , Mengwu Guo , Andrea Manzoni , Attilio Frangi , Steven L. Brunton , J. Nathan Kutz

The accurate but fast calculation of molecular excited states is still a very challenging topic. For many applications, detailed knowledge of the energy funnel in larger molecular aggregates is of key importance requiring highly accurate…

Chemical Physics · Physics 2024-01-12 Vivin Vinod , Sayan Maity , Peter Zaspel , Ulrich Kleinekathöfer

Existing frameworks for evaluating and comparing generative models consider an offline setting, where the evaluator has access to large batches of data produced by the models. However, in practical scenarios, the goal is often to identify…

Machine Learning · Computer Science 2025-03-12 Xiaoyan Hu , Ho-fung Leung , Farzan Farnia

Microstructure evolution, which plays a critical role in determining materials properties, is commonly simulated by the high-fidelity but computationally expensive phase-field method. To address this, we approximate microstructure evolution…

Materials Science · Physics 2024-11-22 Saurabh Tiwari , Prathamesh Satpute , Supriyo Ghosh

In silico prediction of the ligand binding pose to a given protein target is a crucial but challenging task in drug discovery. This work focuses on blind flexible selfdocking, where we aim to predict the positions, orientations and…

Biomolecules · Quantitative Biology 2023-06-02 Yangtian Zhang , Huiyu Cai , Chence Shi , Bozitao Zhong , Jian Tang

Unified multi-model representation spaces are the foundation of multimodal understanding and generation. However, the billions of model parameters and catastrophic forgetting problems make it challenging to further enhance pre-trained…

Computer Vision and Pattern Recognition · Computer Science 2024-05-13 Zehan Wang , Ziang Zhang , Xize Cheng , Rongjie Huang , Luping Liu , Zhenhui Ye , Haifeng Huang , Yang Zhao , Tao Jin , Peng Gao , Zhou Zhao

The Internet of Things (IoT) collects real-time data of physical systems, such as smart factory, intelligent robot and healtcare system, and provide necessary support for digital twins. Depending on the quality and accuracy, these…

Machine Learning · Computer Science 2021-06-29 Lixue Liu , Chao Zhang , Dacheng Tao

In the field of Structure-based Drug Design (SBDD), deep learning-based generative models have achieved outstanding performance in terms of docking score. However, further study shows that the existing molecular generative methods and…

Biomolecules · Quantitative Biology 2024-03-21 Bowen Gao , Minsi Ren , Yuyan Ni , Yanwen Huang , Bo Qiang , Zhi-Ming Ma , Wei-Ying Ma , Yanyan Lan

Aerodynamic shape optimization in industry still faces challenges related to robustness and scalability. This aspect becomes crucial for advanced optimizations that rely on expensive high-fidelity flow solvers, where computational budget…

Fluid Dynamics · Physics 2025-05-26 Marc Schouler , Anca Belme , Paola Cinnella

Research on multi-modal learning dominantly aligns the modalities in a unified space at training, and only a single one is taken for prediction at inference. However, for a real machine, e.g., a robot, sensors could be added or removed at…

Computer Vision and Pattern Recognition · Computer Science 2024-05-28 Yuanhuiyi Lyu , Xu Zheng , Dahun Kim , Lin Wang

In drug discovery, molecular dynamics (MD) simulation for protein-ligand binding provides a powerful tool for predicting binding affinities, estimating transport properties, and exploring pocket sites. There has been a long history of…

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