Author

Matthew H. Nguyen

Johns Hopkins UniversityORCID 0000-0002-4312-5992Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Research Focus:differential expression· 1 Organism:human· 1 Approach:machine learning (classical)· 1 Assay:metagenomics· 1 Approach:statistical model· 1 Research Focus:variant calling· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Brian Lee· 1 shared Cédric ChauveiD· 1 shared Elijah WillieiD· 1 shared Guo Liang Gan· 1 shared Leonid ChindelevitchiD· 1 shared Maxwell W. LibbrechtiD· 1 shared Michael C. SchatziD· 1 shared Mohammad H. Rezaie· 1 shared

Activity by Year

2020-2026 · peak 1/yr

Co-Author Collaboration Network

8 top collaborators · 21 mutual co-author links

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1 shared paperBioinformatics

Brian Lee

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Author profile →

2 papers

Recent·Most cited

Perseus: Lineage-Aware Refinement of Kraken2 Taxonomic Classification for Long Read Metagenomes

Matthew H. Nguyen, Michael C. Schatz

Perseus improves taxonomic classification of long-read metagenomes by refining Kraken2 results with lineage-aware confidence estimation, reducing false assignments and improving precision.

Bioinformatics · Sep 16, 2026Peer-reviewedBioinformatics

Geographic heterogeneity impacts drug resistance predictions in Mycobacterium tuberculosis

Guo Liang Gan, Matthew H. Nguyen, Elijah Willie, Mohammad H. Rezaie, Brian Lee, Cédric Chauve, Maxwell W. Libbrecht, Leonid Chindelevitch

This study uses machine learning on whole-genome sequencing data from multiple geographic regions to predict drug resistance in Mycobacterium tuberculosis, finding that performance varies across datasets due to geographical heterogeneity.

bioRxiv · Sep 17, 2020 · PreprintBioinformatics