6 accepted papers
Protein language models have emerged as powerful tools for sequence generation, offering substantial advantages in functional optimization and *denovo* design. However, these models also present significant risks of generating harmful protein sequences, such as those that enhance viral transmissibil…
Protein optimization is a fundamental biological task aimed at enhancing theperformance of proteins by modifying their sequences. Computational methodsprimarily rely on evolutionary information (EI) encoded by protein languagemodels (PLMs) to predict fitness landscape for optimization. However, thes…
Large Language Models (LLMs) have revolutionized the field of natural language processing, but they fall short in comprehending biological sequences such as proteins. To address this challenge, we propose InstructProtein, an innovative LLM that possesses bidirectional generation capabilities in both…
Directed evolution, a cornerstone of protein optimization, is to harness natural mutational processes to enhance protein functionality. Existing Machine Learning-assisted Directed Evolution (MLDE) methodologies typically rely on data-driven strategies and often overlook the profound domain knowledge…
Molecular representation learning contributes to multiple downstream tasks such as molecular property prediction and drug design. To properly represent molecules, graph contrastive learning is a promising paradigm as it utilizes self-supervision signals and has no requirements for human annotations.…
Our goal is to estimate contour flow (the contour pairs with consistent point correspondence) from inconsistent contours extracted independently in two video frames. We formulate the contour flow estimation locally as a motion segmentation problem where motion patterns grouped from optical flow fiel…