Minh‐Duy Phan

The paper identifies a new carbapenem-resistant E. coli clone, ST361, associated with UTI and shows its virulence is linked to surface polysaccharides and mobile genetic elements.

This paper develops a cell-free DNA fragmentomic classifier using first-trimester NIPT data to predict spontaneous preterm birth with high accuracy.

This study investigates HBV cell-free DNA as a biomarker for viral infectivity in prenatal testing, finding it correlates with high infectivity and reduced fetal fraction in early pregnancy.

CALFP-MHC improves peptide-MHC binding prediction by using chemically grounded fingerprints and contrastive learning, achieving high AUC and PPV across diverse alleles and class imbalance.

This study shows that extracellular loops of the β-barrel domain in Ag43 are essential for passenger domain folding and bacterial aggregation.

This paper uses supervised non-negative matrix factorization on cfDNA fragmentomic features to improve early cancer detection, achieving high AUC scores in both pan-cancer and HCC-specific classifications.

The paper investigates the re-emerging chloramphenicol susceptibility in ESBL-producing Enterobacterales by analyzing genotype-phenotype discordance and molecular mechanisms.

This paper develops a machine learning model that integrates TCRβ and pHLA binding data to improve neoantigen prioritization in colorectal cancer, showing better performance than existing tools.

The paper develops a model combining tumor-specific methylation atlas and cfDNA features to improve tissue-of-origin detection in low-depth cfDNA samples.

epiTCR-KDA improves TCR-peptide binding prediction by incorporating structural dihedral angles and knowledge distillation, achieving high AUC for both seen and unseen data.

This study identifies 85 recessive diseases in the Vietnamese population through exome sequencing, highlighting three highly prevalent conditions and discovering novel pathogenic variants.

MicroPIPE constructs high-quality bacterial genomes using ONT and Illumina sequencing with an automated pipeline.

This study analyzes NIPT data from 2,683 Vietnamese pregnant women to identify 8.2 million new SNPs and 24,487 disease-associated variants, highlighting the need for population-specific genetic studies.

The paper analyzes DNA methylation patterns in seven Escherichia coli ST101 strains to identify methylome diversity linked to mobile genetic elements and their impact on functional differences between nearly identical isolates.

This study characterizes the genomic context of blaNDM-1 in E. coli ST101 isolates using long-read sequencing, revealing two clades with distinct resistance profiles and plasmid-mediated blaNDM-1 carriage mechanisms.

The paper uses three whole genome sequencing technologies to analyze a carbapenemase-producing Enterobacter hormaechei outbreak, identifying transmission dynamics and plasmid context.