Henry Li

Bringing the Genetically Minimal Cell to Life on a Computer in 4D

A hybrid 4D whole-cell simulation of the minimal bacterium JCVI-syn3A integrates spatial reaction-diffusion, metabolism, polymer chromosome dynamics, and division across a complete 105-minute cell cycle.

Supervised fine-tuning of pre-trained antibody language models improves antigen specificity prediction

This study improves antigen specificity prediction by fine-tuning pre-trained antibody language models on SARS-CoV-2 and influenza antigens, showing better accuracy than models trained on embeddings alone.

Language model-based B cell receptor sequence embeddings can effectively encode receptor specificity

This study evaluates B cell receptor sequence embeddings for predicting sequence properties and specificity, finding that BCR-specific embeddings and paired-chain sequences improve performance.

Detection of differentially abundant cell subpopulations discriminates biological states in scRNA-seq data

DA-seq identifies differentially abundant cell subpopulations between biological states in scRNA-seq data, revealing both known and novel subpopulations with biological insights.