Tianshuo Zhou

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 are designable. Recent advances in RNA designability have…

Designing messenger RNA (mRNA) sequences for a fixed target protein requires searching an exponentially large synonymous space while optimizing properties that affect stability and downstream performance. This is challenging because…

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 either minimum free energy (MFE)-based or ensemble-based…

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 the exponentially large sequence space and exponentially many…

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 generating accurate and natural body poses and movements that…

With the rapid advancement of Multi-modal Large Language Models (MLLMs), their capability in understanding both images and text has greatly improved. However, their potential for leveraging multi-modal contextual information in…

With enhanced capabilities and widespread applications, Multimodal Large Language Models (MLLMs) are increasingly required to process and reason over multiple images simultaneously. However, existing MLLM benchmarks focus either on…

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 fold into the target structure under the default (Turner) RNA…

Recently, Multimodal Large Language Models (MLLMs) have been used as agents to control keyboard and mouse inputs by directly perceiving the Graphical User Interface (GUI) and generating corresponding commands. However, current agents…

The task of RNA design given a target structure aims to find a sequence that can fold into that structure. It is a computationally hard problem where some version(s) have been proven to be NP-hard. As a result, heuristic methods such as…

RNA design is the search for a sequence or set of sequences that will fold into predefined structures, also known as the inverse problem of RNA folding. While numerous RNA design methods have been invented to find sequences capable of…

This paper proposes Multi-modAl Retrieval model via Visual modulE pLugin (MARVEL), which learns an embedding space for queries and multi-modal documents to conduct retrieval. MARVEL encodes queries and multi-modal documents with a unified…

The tasks of designing RNAs are discrete optimization problems, and several versions of these problems are NP-hard. As an alternative to commonly used local search methods, we formulate these problems as continuous optimization and develop…

Relevance search is to find top-ranked entities in a knowledge graph (KG) that are relevant to a query entity. Relevance is ambiguous, particularly over a schema-rich KG like DBpedia which supports a wide range of different semantics of…