Author

D. Callan

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Organism:mouse· 1 Approach:statistical model· 1 Approach:transformer / foundation model· 1

Frequent Co-Authors

A. Nekrutenko· 2 shared S. L. Kosakovsky Pond· 2 shared A. G. Lucaci· 1 shared A. Selberg· 1 shared D. P. Martin· 1 shared G. Brown· 1 shared H. Verdonk· 1 shared J. D. Zehr· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersGenomics

A. Nekrutenko

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2 papers

Recent·Most cited

PyEuk: a tool suite for catalogue-free multilocus typing

S. L. Kosakovsky Pond, D. Callan, A. Nekrutenko

PyEuk is a catalogue-free tool for multilocus typing of eukaryotic parasites, enabling accurate strain identification and transmission analysis without organism-specific tuning.

bioRxiv · Sep 16, 2026 · PreprintGenomics

HyphAeon: Attention on Evolution Across Deep Time Transforms Comparative Genomics

S. L. Kosakovsky Pond, S. Weaver, D. Callan, J. D. Zehr, A. G. Lucaci, H. Verdonk, A. Selberg, G. Brown, M. Chikina, N. L. Clark, K. D. Makova, D. P. Martin, A. Nekrutenko

HyphAeon is a transformer model that accelerates detection of episodic diversifying selection in mammalian genomes and enables new analytical capabilities beyond traditional dN/dS methods.

bioRxiv · Sep 10, 2026 · PreprintBioinformatics