Qingxiu Li

Proteome-Scale Mining and Multi-Objective Prioritization of Encrypted Antimicrobial Peptides with Experimental Validation

The paper develops a framework to mine and prioritize encrypted antimicrobial peptides from bacterial genomes, validates three candidates experimentally, and shows concentration-dependent activity against E. coli and S. aureus.

Genome-context-aware discovery of antibacterial peptides from bacterial small open reading frames

The paper identifies antibacterial peptides from bacterial sORFs by combining sequence analysis with genomic context, finding that genomic evidence is crucial for reliable candidates.

Conserved influenza A epitope candidate regions and a benchmark of ESM-2 sequence features

The paper identifies conserved influenza A epitope regions and evaluates ESM-2 sequence features for epitope prioritization, finding no significant improvement over alignment-based conservation.

Niche-specific microbial community structure of subgingival plaque in periodontitis

The paper characterizes subgingival plaque microbial communities in periodontitis patients and healthy individuals, finding distinct niche-specific structures and associations.

Ecological trajectories and microbial network reorganization across caries-associated oral niches

The paper analyzes microbial community organization in dental caries by comparing healthy plaque, caries-associated plaque, and carious dentin using 16S rRNA sequencing, identifying distinct ecological and network patterns.