This paper introduces AMP-SEMiner, an AI framework for discovering antimicrobial peptides from metagenomes, identifying over 1.6 million candidates and validating their antimicrobial activity.

Cell Reports · May 28, 2025Peer-reviewedMicrobiology

Enzyme Co-Scientist: Harnessing Large Language Models for Enzyme Kinetic Data Extraction from Literature

Jinling Jiang, Jie Hu, Siwei Xie, Meng-Hao Guo, Yuhang Dong, Shuai Fu, Xianyue Jiang, Zhenlei Yue, Junchao Shi, Xiaoyu Zhang, Minghui Song, Guangyong Chen, Hua Lu, Xindong Wu, Pei Guo, , Jiezhong Qiu

The paper presents an LLM-based workflow for extracting enzyme kinetic data from literature, achieving high accuracy and efficiency.

bioRxiv · Mar 3, 2025 · PreprintBiochemistry

Discovering CRISPR-Cas system with self-processing pre-crRNA capability by foundation models

Wenhui Li, Xianyue Jiang, Wuke Wang, Liya Hou, Runze Cai, Yongqian Li, Qiuxi Gu, Qinchang Chen, Peixiang Ma, Jin Tang, Meng-Hao Guo, Guohui Chuai, Xingxu Huang, Jun Zhang, Qi Liu

The paper introduces CHOOSER, a foundation model-based framework for discovering CRISPR-Cas systems with self-processing pre-crRNA capability, identifying 11 novel homologs and validating one for functional use.

Nature Communications · Nov 19, 2024Peer-reviewedBioinformatics