Author

Bryan T. Gemler

BattelleORCID 0000-0002-9635-4545Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 5 Research Focus:benchmarking· 4 Assay:DNA methylation· 3 Approach:benchmark study· 1 Research Focus:database / resource· 1 Assay:metagenomics· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Jacob BealiD· 4 shared Kevin FlyangoltsiD· 4 shared Nicole E. WheeleriD· 4 shared Steven T. MurphyiD· 4 shared Tessa AlexanianiD· 4 shared Tom MitchelliD· 4 shared Adam J. CloreiD· 3 shared Craig M. BartlingiD· 3 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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4 shared papersSynthetic Biology

Jacob BealORCID

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Author profile →

5 papers

Recent·Most cited

The Limits of Sequence-Based Biosecurity Screening Tools in the Age of AI-Assisted Protein Design

Bruce J. Wittmann, Nicole E. Wheeler, Steven T. Murphy, Tom Mitchell, Brittany Rife Magalis, Bryan T. Gemler, Kevin Flyangolts, James Diggans, Adam J. Clore, Jacob Beal, Craig Bartling, Tessa Alexanian, Eric Horvitz

This study evaluates the effectiveness of biosecurity screening tools against AI-generated synthetic homologs of proteins of concern, finding some tools can detect fragments as short as 50 nucleotides.

Frontiers in Bioengineering and Biotechnology · Jul 13, 2026Peer-reviewedSynthetic Biology

Developing a Standard Definition for Sequences of Concern

Tessa Alexanian, Jacob Beal, Craig Bartling, Jens Berlips, Peter A. Carr, Adam J. Clore, Helena Cozzarini, James Diggans, Yorgo El Moubayed, Kevin M. Esvelt, Kevin Flyangolts, Leonard Newton Foner, Patrick A. Fullerton, Bryan T. Gemler, Caitlin A. D. Jagla, , Nicole E. Wheeler

The paper develops a rubric to define sequences of concern by analyzing test sequences and refining categorization through stakeholder review, reducing disputed categorization by 44.3% for controlled viruses.

Frontiers in Bioengineering and Biotechnology · Jun 4, 2026Peer-reviewedBioinformatics

Inter-tool analysis of a NIST dataset for assessing baseline nucleic acid sequence screening

Tyler S. Laird, Kevin Flyangolts, Craig M. Bartling, Bryan T. Gemler, Jacob Beal, Tom Mitchell, Steven T. Murphy, Jens Berlips, Leonard Newton Foner, Ryan Doughty, Felix Quintana, Michael Nute, Todd J. Treangen, Gene D. Godbold, Krista L. Ternus, , Samuel P. Forry

The paper evaluates sequence screening tools using a NIST dataset to assess their consistency in identifying sequences of concern.

Applied Biosafety · Dec 26, 2025Peer-reviewedBioinformatics

Toward AI-Resilient Screening of Nucleic Acid Synthesis Orders: Process, Results, and Recommendations

Bruce J. Wittmann, Tessa Alexanian, Craig M. Bartling, Jacob Beal, Adam J. Clore, James Diggans, Kevin Flyangolts, Bryan T. Gemler, Tom Mitchell, Steven T. Murphy, Nicole E. Wheeler, Eric Horvitz

The paper evaluates biosecurity screening tools for detecting AI-generated synthetic protein homologs and reports improved detection rates through patches.

bioRxiv · Dec 2, 2024 · PreprintSynthetic Biology

UltraSEQ: a universal bioinformatic platform for information-based clinical metagenomics and beyond

Bryan T. Gemler, Chiranjit Mukherjee, Carrie A. Howland, Patrick A. Fullerton, Rachel R. Spurbeck, Lindsay A. Catlin, Anthony Smith, Angela T. Minard-Smith, Craig M. Bartling

UltraSEQ is a clinical metagenomics platform that accurately detects pathogens and antibiotic resistance from diverse sequencing data without requiring specialized configuration.

Microbiology Spectrum · Apr 11, 2023Peer-reviewedBioinformatics