arXiv:2606.01461cs.LGcs.MA2026-06

基于基因型生成抗癌药,同时优化疗效、可合成性和机制合理性。

Genotype-Conditioned Molecular Generation via Evidence-Grounded Multi-Objective Latent Perturbation in Diffusion Models

论文配图:Genotype-Conditioned Molecular Generation via Evidence-Grounded Multi-Objective Latent Perturbation in Diffusion Models
图 1 · 摘自论文原文
  • 在扩散模型潜空间引入可学习扰动,通过梯度上升优化复合奖励。
  • 在15个癌细胞系上显著提升药物敏感性(AUC)、类药性(QED)和可合成性(SAS)。
  • 结合真实临床数据与多智能体LLM评估机制一致性,适合精准药物发现场景。

由于肿瘤异质性及癌症亚型间缺乏明确分子靶点,开发有效抗癌疗法仍具挑战。基于癌症基因型的生成模型为个性化药物发现提供了新路径,但现有方法未显式优化药物敏感性、可合成性与作用机制合理性。本文提出一种预训练基因型到药物扩散模型的潜空间优化方法,引入可学习扰动,通过梯度上升最大化包含预测药物敏感性(AUC)、类药性(QED)和合成可及性(SAS)的复合奖励。关键在于,奖励设计与评估均基于实验获取的癌细胞系数据和已验证药理信号,确保生物真实性;机制一致性通过基于扩散模型注意力机制的多智能体LLM管道评估。在三个独立测试集共15个癌细胞系上的实验表明,该方法在药物敏感性、类药性、可合成性与化学有效性方面均显著优于基线模型。

原文摘要 · Abstract (English)

Developing effective anticancer therapeutics remains challenging due to tumor heterogeneity and the absence of well-defined molecular targets across cancer subtypes. Generative models conditioned on cancer genotypes offer a promising avenue for personalized drug discovery, yet existing approaches lack explicit optimization for simultaneous sensitivity, synthesizability, and mechanistic binding plausibility. We present a latent-space optimization approach for a pretrained genotype-to-drug diffusion model, introducing a learnable perturbation over the molecular latent space optimized via gradient ascent to maximize a composite reward combining predicted drug sensitivity (AUC), drug-likeness (QED), and synthetic accessibility (SAS). Critically, biological realism is enforced by grounding both reward design and evaluation in experimentally-derived cancer cell line data and validated pharmacologic signals, anchoring candidate generation in real-world clinical evidence. Mechanistic consistency plausibility is further assessed by a multi-agent LLM pipeline grounded in the diffusion model's attention mechanism. Experiments across 15 cancer cell lines from three held-out evaluation sets demonstrate consistent and noticeable improvements over competing baselines in sensitivity, drug-likeness, synthesizability, and chemical validity.

分子生成扩散模型精准医疗

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