Huanxiang Liu

The OxyR-Responsive TacAT Module Promotes Oxidative Stress Adaptation and In Vivo Fitness in K. pneumoniae

This study identifies the OxyR-TacAT regulatory module in K. pneumoniae, showing it enhances peroxide tolerance and in vivo fitness by regulating stress-response genes.

Promoter architecture decodes response regulator phosphorylation into distinct transcriptional logics in Pseudomonas aeruginosa

The paper shows how promoter architecture in Pseudomonas aeruginosa determines whether phosphorylation of the ParR response regulator activates, represses, or reverses gene expression.

Promoter architecture diversifies ParR-dependent transcription in Pseudomonas aeruginosa

This study shows how promoter architecture in Pseudomonas aeruginosa determines different transcriptional outputs from the same ParR phosphorylation signal.

MAERM: Predicting Enzyme-Reaction Matching Relationships with a Mixed-Attention Model

MAERM predicts enzyme-reaction matching relationships using a mixed-attention model, outperforming baselines and enabling enzyme design.

Interpretable PROTAC degradation prediction with structure-informed deep ternary attention framework

This paper introduces PROTAC-STAN, a deep learning framework for interpretable PROTAC degradation prediction, achieving improved accuracy and model interpretability.

PepPCBench is a Comprehensive Benchmark for Protein-Peptide Complex Structure Prediction with AlphaFold3

The paper introduces PepPCBench, a benchmark framework to evaluate AlphaFold3's performance in predicting protein-peptide complexes using a curated dataset.

A versatile framework for drug-target interaction prediction by considering domain specific features

This paper introduces E-DIS, a framework for drug-target interaction prediction that improves generalization to out-of-distribution data by combining domain-specific and domain-generic features.