6 accepted papers
We present protein autoregressive modeling (PAR), the first multi-scale autoregressive framework for protein backbone generation via coarse-to-fine next-scale prediction. Using the hierarchical nature of proteins, PAR generates structures that mimic sculpting a statue, forming a coarse topology and …
Accurate molecular representations are critical for drug discovery, and a central challenge lies in capturing the chemical environment of molecular fragments, as key interactions, such as H-bond and π stacking—occur only under specific local conditions. Most existing approaches represent molecules a…
Controlled generation with pre-trained Diffusion and Flow Matching models has vast applications. One strategy for guiding ODE-based generative models is through optimizing a target loss $R(x_1)$ while staying close to the prior distribution. Along this line, some recent work showed the effectiveness…
Generative models for structure-based drug design (SBDD) have shown promising results in recent years. Existing works mainly focus on how to generate molecules with higher binding affinity, ignoring the feasibility prerequisites for generated 3D poses and resulting in *false positives*. We conduct t…
Data augmentation has been demonstrated as an effective strategy for improving model generalization and data efficiency. However, due to the discrete nature of natural language, designing label-preserving transformations for text data tends to be more challenging. In this paper, we propose a novel…
Grounding events into a precise timeline is important for natural language understanding but has received limited attention in recent work. This problem is challenging due to the inherent ambiguity of language and the requirement for information propagation over inter-related events. This paper firs…