Yunrui Qiu

LIMBER is a hybrid RNA foundation model that predicts RNA structure and function, showing strong performance in secondary-structure prediction and classification, along with transferability to related tasks.

This study develops a computational framework to model RNA conformational ensembles and their dynamics, showing temperature's effect on folding landscapes and agreement with experimental data.

This paper introduces REDIAL, an unsupervised framework to detect overparametrization in RNA language models, revealing inefficiencies and design flaws in current models.

RNAnneal predicts RNA structural ensembles using deep learning and physics-based modeling, outperforming existing methods in classifying experimentally resolved conformations.

This study maps chromatin folding pathways and rates using a coarse-grained model, showing that linker DNA length and nucleosome condensate affect stability and structure.