黑洞策略:基于重力的金属-有机框架网络节俭图学习的代表性抽样。

IF 5.3 2区 化学 Q1 CHEMISTRY, MEDICINAL
Mehrdad Jalali,A D Dinga Wonanke,Pascal Friederich,Christof Wöll
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引用次数: 0

摘要

大规模材料数据库的扩展促进了基于图的表示的发展,编码结构和功能上的相似性作为数据驱动网络中的边缘。这使得机器学习模型能够利用本地特征和全局关系。然而,密集连接的数据集通常会引入冗余和噪声,在不提高性能的情况下增加计算复杂性。在这里,我们介绍了黑洞策略,这是一种基于重力的代表性采样方法,可以从大型材料数据集中构建紧凑、信息丰富的子集,同时保留基本的结构和属性多样性。使用金属有机框架(mof)作为案例研究,我们证明了在黑洞稀疏化数据集上训练的图神经网络(GraphSAGE、GCN和GAT)与完整数据集模型相比,尽管使用的数据点明显减少,内存和训练时间要求也减少了,但分类和回归性能却相当或更好。对类级混淆矩阵的分析证实,关键的结构-性能关系──如孔隙限制直径(PLD)──在大量稀疏化下仍然存在。对重力评分权重的消融研究验证了该方法的平衡表述和鲁棒性。拓扑和效率基准进一步证明,该方法在各个稀疏化级别上保持了模块化、多样性和连通性。这些发现将黑洞策略确立为材料科学中机器学习的原则和节俭方法,实现高效、可解释和可扩展的发现工作流程。重要的是,这项工作有助于FAIRmat联盟的目标,该联盟旨在为凝聚态物理和材料科学开发FAIR数据基础设施。我们的方法通过优化采样技术推进了FAIR(可查找、可访问、可互操作、可重用)数据实践,增强了材料信息学中的数据管理、可重用性和互操作性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
The Black Hole Strategy: Gravity-Based Representative Sampling for Frugal Graph Learning on Metal-Organic Framework Networks.
The expansion of large-scale materials databases has facilitated the development of graph-based representations, encoding structural and functional similarities as edges in data-driven networks. These enable machine learning models to leverage both local features and global relationships. However, densely connected datasets often introduce redundancy and noise, escalating computational complexity without improving performance. Here, we introduce the Black Hole Strategy, a gravity-based representative sampling method that constructs compact, informative subsets from large materials datasets while preserving essential structural and property diversity. Using metal-organic frameworks (MOFs) as a case study, we demonstrate that graph neural networks (GraphSAGE, GCN, and GAT) trained on Black Hole-sparsified datasets achieve comparable or superior classification and regression performance compared to full-dataset models, despite utilizing significantly fewer data points and reduced memory and training time requirements. Analysis of class-level confusion matrices confirms that critical structure-property relationships─such as pore-limiting diameter (PLD)─persist under substantial sparsification. An ablation study on gravity score weights validates the balanced formulation and robustness of the approach. Topological and efficiency benchmarks further demonstrate that the method preserves modularity, diversity, and connectivity across sparsification levels. These findings establish the Black Hole Strategy as a principled and frugal approach for machine learning in materials science, enabling efficient, interpretable, and scalable discovery workflows. Importantly, this work contributes to the objectives of the FAIRmat consortium, which aims to develop a FAIR data infrastructure for condensed matter physics and materials science. Our approach advances FAIR (Findable, Accessible, Interoperable, Reusable) data practices through optimized sampling techniques that enhance data management, reusability, and interoperability in materials informatics.
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来源期刊
CiteScore
9.80
自引率
10.70%
发文量
529
审稿时长
1.4 months
期刊介绍: The Journal of Chemical Information and Modeling publishes papers reporting new methodology and/or important applications in the fields of chemical informatics and molecular modeling. Specific topics include the representation and computer-based searching of chemical databases, molecular modeling, computer-aided molecular design of new materials, catalysts, or ligands, development of new computational methods or efficient algorithms for chemical software, and biopharmaceutical chemistry including analyses of biological activity and other issues related to drug discovery. Astute chemists, computer scientists, and information specialists look to this monthly’s insightful research studies, programming innovations, and software reviews to keep current with advances in this integral, multidisciplinary field. As a subscriber you’ll stay abreast of database search systems, use of graph theory in chemical problems, substructure search systems, pattern recognition and clustering, analysis of chemical and physical data, molecular modeling, graphics and natural language interfaces, bibliometric and citation analysis, and synthesis design and reactions databases.
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