NeuroPred-PLM: an interpretable and robust model for neuropeptide prediction by protein language model

L Wang, C Huang, M Wang, Z Xue… - Briefings in …, 2023 - academic.oup.com
Neuropeptides are a diverse and complex class of signaling molecules that regulate a
variety of biological processes. Neuropeptides provide many opportunities for the discovery …

Deciphering the protein landscape with ProtFlash, a lightweight language model

L Wang, H Zhang, W Xu, Z Xue, Y Wang - Cell Reports Physical Science, 2023 - cell.com
Protein language models have been gaining attention and have achieved some exciting
breakthroughs in protein modeling tasks compared with the utilization of co-evolutionary and …

[HTML][HTML] DeepNeuropePred: A robust and universal tool to predict cleavage sites from neuropeptide precursors by protein language model

L Wang, Z Zeng, Z Xue, Y Wang - Computational and Structural …, 2024 - Elsevier
Neuropeptides play critical roles in many biological processes such as growth, learning,
memory, metabolism, and neuronal differentiation. A few approaches have been reported for …

Pre-trained protein language model sheds new light on the prediction of Arabidopsis protein–protein interactions

K Zhou, C Lei, J Zheng, Y Huang, Z Zhang - Plant Methods, 2023 - Springer
Abstract Background Protein–protein interactions (PPIs) are heavily involved in many
biological processes. Consequently, the identification of PPIs in the model plant Arabidopsis …

RNA3DClust: segmentation of RNA three-dimensional structures using a clustering-based approach

QK Le, E Angel, F Tahi, G Postic - bioRxiv, 2025 - biorxiv.org
A growing body of evidence shows that the biological activity of RNA molecules is not only
due to their primary and secondary structures, but also to their spatial conformation. As the …