Author

David Burke James Mahoney

Dalhousie UniversityORCID 0000-0002-5732-0959Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Bioinformatics· 2 Synthetic Biology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Assay:metagenomics· 3 Research Focus:benchmarking· 2 Approach:statistical model· 2 Research Focus:database / resource· 1 Approach:experimental assay· 1 Organism:mouse· 1

Frequent Co-Authors

Finlay MaguireiD· 2 shared Angela Tsai· 1 shared Caroline GuinardiD· 1 shared Craig McCormickiD· 1 shared Emma CL Finlayson-TrickiD· 1 shared Francis Routledge· 1 shared Jacob Sicheri· 1 shared Jamie Cook· 1 shared

Activity by Year

2018-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

2 shared papersBioinformatics

Finlay MaguireORCID

Author profile →

3 papers

Recent·Most cited

Sarand: Exploring Antimicrobial Resistance Gene Neighborhoods in Complex Metagenomic Assembly Graphs

Somayeh Kafaie, Shahlla Naseri, David Burke James Mahoney, Travis Gagie, Robert Gerald Beiko, Finlay Maguire

Sarand extracts AMR gene contexts from metagenomic assembly graphs, improving precision and sensitivity over existing methods.

NAR Genomics and Bioinformatics · Jun 27, 2026Peer-reviewedBioinformatics

Best of Both Worlds? Optimising Graph-Based Antimicrobial Resistance Gene Profiling in Long and Short-Read Metagenomes

David Burke James Mahoney, Finlay Maguire

This study evaluates graph-based tools for detecting antimicrobial resistance genes in metagenomes, finding that graph alignment improves detection while preserving genomic context.

bioRxiv · Dec 26, 2025 · PreprintBioinformatics

Discovery and Characterization of Novel Lignocellulose-Degrading Enzymes from the Porcupine Microbiome by Synthetic Metagenomics

Mackenzie Thornbury, Jacob Sicheri, Caroline Guinard, David Burke James Mahoney, Francis Routledge, M. M. Curry, Mariam Elaghil, Nicholas Boudreau, Angela Tsai, Patrick D. Slaine, Emma CL Finlayson-Trick, Landon J. Getz, Jamie Cook, John R. Rohde, Craig McCormick

The paper identifies and characterizes four novel lignocellulose-degrading enzymes from the porcupine microbiome and explores their potential for biofuel production.

bioRxiv · Jul 18, 2018 · PreprintSynthetic Biology