Protein conformational ensemble generation aims to efficiently characterize the structural variations accessible to a protein beyond a single static structure. Recent flow-based methods efficiently generate conformational ensembles, but they model coordinated structural variation implicitly, which can limit ensemble fidelity and hinder direct control. To address this limitation, we propose CoMoFlow, a controllable framework for generating protein backbone conformational ensembles by explicitly modeling collective variation. CoMoFlow constructs protein-specific collective modes from the equilibrium structure, learns the distribution of their coefficients across the molecular dynamics (MD) ensemble, and uses sampled collective variations to guide SE(3) flow matching through feature conditioning and prior recentering. Experiments on ATLAS and de novo proteins show that CoMoFlow improves reconstruction of MD conformational distributions and coordinated structural variation relative to strong flow-based baselines, while enabling direct control over targeted conformational changes.
Yuechen Jiang, Zhiwei Liu, Yupeng Cao, Yueru He Columbia University, Ziyang Xu, Chen Xu, Zhiyang Deng, Prayag Tiwari Halmstad University 等 13 位作者
原文摘要
We introduce RFC-Bench, a benchmark for evaluating large language models on financial misinformation under realistic news. RFC-Bench operates at the paragraph level and captures the contextual complexity of financial news where meaning emerges from dispersed cues. The benchmark defines two complementary tasks: reference-free misinformation detection and comparison-based diagnosis using paired original–perturbed inputs. Experiments reveal a consistent pattern: performance is substantially stronger when comparative context is available, while reference-free settings expose significant weaknesses, including unstable predictions and elevated invalid outputs. These results indicate that current models struggle to maintain coherent belief states without external grounding. By highlighting this gap, RFC-Bench provides a structured testbed for studying reference-free reasoning and advancing more reliable financial misinformation detection in real-world settings.
cs.CL
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表