arXiv:2502.16446cs.LGcs.AI2025-02中稿 · Journal of Chemica…被引 2

用辅助分类器提升小样本分子生成质量,专治数据少的药物设计难题。

Auxiliary Discrminator Sequence Generative Adversarial Networks (ADSeqGAN) for Few Sample Molecule Generation

  • 引入随机森林作辅助判别器,增强生成分子对靶标的特异性。
  • 在3个真实案例中生成分子命中率超基准模型,最高达32.8%活性预测率。
  • 适合缺乏数据的药物研发场景,如神经类药、核酸结合剂等新药设计。

本文提出辅助判别器序列生成对抗网络(ADSeqGAN),用于小样本分子生成。传统生成模型在药物发现中常受限于数据稀缺,尤其是针对核酸结合剂和中枢神经系统(CNS)药物等特定靶点的数据匮乏。ADSeqGAN通过在生成对抗网络框架中加入辅助随机森林分类器作为额外判别器,显著提升生成分子的质量与靶向特异性。方法融合预训练生成器与Wasserstein距离,增强训练稳定性与多样性。我们在三个典型任务中评估该方法:第一,在核酸与蛋白靶向分子生成中,ADSeqGAN在生成核酸结合剂方面优于基线模型;第二,通过过采样策略显著提升CNS药物生成效率,产量高于传统从头生成模型;第三,在大麻素受体1型(CB1)配体设计中,生成了新型类药分子,其32.8%被预测为活性分子,超过以CB1为重点及通用库的命中率,评分采用靶点特异性LRIP-SF函数。总体而言,ADSeqGAN为数据稀缺场景下的分子设计提供了一个通用框架,已在核酸结合剂、CNS药物及CB1配体设计中得到验证。

原文摘要 · Abstract (English)

In this work, we introduce Auxiliary Discriminator Sequence Generative Adversarial Networks (ADSeqGAN), a novel approach for molecular generation in small-sample datasets. Traditional generative models often struggle with limited training data, particularly in drug discovery, where molecular datasets for specific therapeutic targets, such as nucleic acids binders and central nervous system (CNS) drugs, are scarce. ADSeqGAN addresses this challenge by integrating an auxiliary random forest classifier as an additional discriminator into the GAN framework, significantly improves molecular generation quality and class specificity. Our method incorporates pretrained generator and Wasserstein distance to enhance training stability and diversity. We evaluate ADSeqGAN across three representative cases. First, on nucleic acid- and protein-targeting molecules, ADSeqGAN shows superior capability in generating nucleic acid binders compared to baseline models. Second, through oversampling, it markedly improves CNS drug generation, achieving higher yields than traditional de novo models. Third, in cannabinoid receptor type 1 (CB1) ligand design, ADSeqGAN generates novel druglike molecules, with 32.8\% predicted actives surpassing hit rates of CB1-focused and general-purpose libraries when assessed by a target-specific LRIP-SF scoring function. Overall, ADSeqGAN offers a versatile framework for molecular design in data-scarce scenarios, with demonstrated applications in nucleic acid binders, CNS drugs, and CB1 ligands.

分子生成小样本学习生成对抗网络药物设计

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