7 papers
Probabilistic RNA Designability via Interpretable Ensemble Approximation and Dynamic Decomposition
Tianshuo Zhou, David H. Mathews, Liang Huang
Motivation: RNA design aims to find RNA sequences that fold into a given target secondary structure, a problem also known as RNA inverse folding. However, not all target structures…
Sampling-based Continuous Optimization for Messenger RNA Design
Feipeng Yue, Ning Dai, Wei Yu Tang +3
Designing messenger RNA (mRNA) sequences for a fixed target protein requires searching an exponentially large synonymous space while optimizing properties that affect stability and…
Fast and Versatile RNA Design via Motif-level Divide-and-Conquer and Structure-level Rival Search
Tianshuo Zhou, David H. Mathews, Liang Huang
RNA design aims to identify RNA sequences that fold into a target secondary structure. This task is challenging in terms of computational efficiency. Most existing methods focus on…
Designing RNAs with Language Models
Milan Gautam, Ning Dai, Tianshuo Zhou +3
RNA design, the task of finding a sequence that folds into a target secondary structure, has broad biological and biomedical impact but remains computationally challenging due to t…
Geometry-Aware Losses for Structure-Preserving Text-to-Sign Language Generation
Zetian Wu, Tianshuo Zhou, Stefan Lee +1
Sign language translation from text to video plays a crucial role in enabling effective communication for Deaf and hard--of--hearing individuals. A major challenge lies in generati…
Scalable and Interpretable Identification of Minimal Undesignable RNA Structure Motifs with Rotational Invariance
Tianshuo Zhou, Wei Yu Tang, Apoorv Malik +2
RNA design aims to find a sequence that folds with highest probability into a designated target structure. However, certain structures are undesignable, meaning no sequence can fol…