arXiv:2606.30170cs.LGcond-mat.mes-hall2026-06

用量子模拟替代药物代理,推动机器学习在纳米材料中的真实发现。

Beyond Drug Discovery: The Nanotechnology Molecular Optimization (NMO) Benchmark

论文配图:Beyond Drug Discovery: The Nanotechnology Molecular Optimization (NMO) Benchmark
图 1 · 摘自论文原文
  • 以量子模拟构建物理约束任务,打破药物数据偏见
  • 新基准上先进模型表现反而不如简单方法
  • 提出无领域偏见预训练与结构表示新方案

生成式分子设计长期依赖药物类性质的简化代理指标和大型制药数据集预训练模型,虽在基准上表现优异,但难以迁移至结构迥异的领域。为突破此局限并推动科学发现向真实目标演进,我们提出纳米技术分子优化(NMO)基准,连接机器学习与量子材料科学。NMO同时作为机器学习严谨测试平台和纳米科技发现引擎,以量子模拟替代代理指标,并建立严格协议,强调科学实用性而非排行榜过拟合。基于物理的NMO任务施加严苛结构约束与复杂适应度景观,对生成模型提出全新挑战。值得注意的是,先进分子优化方法在该基准上远逊于简单方法。我们开发了一种新基线方法,识别出解决任务的关键组件:包括用于建模结构约束的新表示,以及消除制药数据偏见的领域无关预训练策略。实验结果超越现有物理性能,揭示此前未知的结构特征,为纳米科技界提供新洞见,证明机器学习可真正驱动科学发现。

原文摘要 · Abstract (English)

Generative molecular design is shaped by simple proxy benchmarks for drug-like properties and models pretrained on large pharmaceutical datasets. This combination yields strong benchmark metrics but limits transferability to domains structurally distinct from drug discovery. To overcome this limitation and drive discovery toward real, scientifically grounded targets, we introduce the Nanotechnology Molecular Optimization (NMO) Benchmark, which bridges machine learning (ML) and quantum materials science. NMO acts simultaneously as a rigorous testbed for the ML community and a discovery engine for nanotechnology research. The suite replaces proxy oracles with quantum simulations and introduces strict protocols that prioritize scientific utility over leaderboard-oriented overfitting. The physics-based NMO tasks impose hard structural constraints and rugged fitness landscapes, posing fundamentally new requirements on generative models. Notably, advanced molecular optimization methods underperform much simpler approaches on the NMO tasks. We develop a new baseline method identifying the critical components to solve the NMO tasks, including a novel representation for modeling structural constraints and a domain-agnostic pretraining strategy to eliminate pharmaceutical dataset bias. Our results surpass state-of-the-art physical properties and reveal previously unknown structural motifs, offering new insights for the nanotechnology community and demonstrating that ML can drive genuine scientific discovery.

分子生成纳米材料量子模拟科学发现

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