Sirine Ayadi

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2papers

2 Papers

19.7LGApr 19
Interpolating Discrete Diffusion Models with Controllable Resampling

Marcel Kollovieh, Sirine Ayadi, Stephan Günnemann

Discrete diffusion models form a powerful class of generative models across diverse domains, including text and graphs. However, existing approaches face fundamental limitations. Masked diffusion models suffer from irreversible errors due to early unmasking, while uniform diffusion models, despite enabling self-correction, often yield low-quality samples due to their strong reliance on intermediate latent states. We introduce IDDM, an Interpolating Discrete Diffusion Model, that improves diffusion by reducing dependence on intermediate latent states. Central to IDDM is a controllable resampling mechanism that partially resets probability mass to the marginal distribution, mitigating error accumulation and enabling more effective token corrections. IDDM specifies a generative process whose transitions interpolate between staying at the current state, resampling from a prior, and flipping toward the target state, while enforcing marginal consistency and fully decoupling training from inference. We benchmark our model against state-of-the-art discrete diffusion models across molecular graph generation as well as text generation tasks, demonstrating competitive performance.

BMJan 5, 2025
Unified Guidance for Geometry-Conditioned Molecular Generation

Sirine Ayadi, Leon Hetzel, Johanna Sommer et al.

Effectively designing molecular geometries is essential to advancing pharmaceutical innovations, a domain, which has experienced great attention through the success of generative models and, in particular, diffusion models. However, current molecular diffusion models are tailored towards a specific downstream task and lack adaptability. We introduce UniGuide, a framework for controlled geometric guidance of unconditional diffusion models that allows flexible conditioning during inference without the requirement of extra training or networks. We show how applications such as structure-based, fragment-based, and ligand-based drug design are formulated in the UniGuide framework and demonstrate on-par or superior performance compared to specialised models. Offering a more versatile approach, UniGuide has the potential to streamline the development of molecular generative models, allowing them to be readily used in diverse application scenarios.