Andrew R. Lloyd

DENcode estimates transmission probabilities between dengue cases using genetic and epidemiological data, revealing key transmission roles and network structures.

This study analyzes mutation patterns in dengue virus genomes from acute infections, showing higher haplotype diversity than consensus sequences.

This study examines how viral fitness and immune responses interact in HCV infection, showing fitness decreases early but rebounds with mutations, and strong CD8+ T-cell responses drive chronic infection.

VDJPuzzle 2.0 reconstructs full-length B-cell receptor sequences from scRNA-seq with high accuracy, validated against Sanger sequencing.

This study examines how sequencing depth and read length affect scRNA-seq data quality, finding that sufficient depth and length improve TCRβ reconstruction and gene expression accuracy in T cells.