Author

A. G. Lucaci

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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Evolutionary Biology· 3 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Research Focus:chromatin & epigenetic regulation· 1 Research Focus:differential expression· 1 Organism:fungi (other)· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1

Frequent Co-Authors

S. L. Kosakovsky Pond· 4 shared J. D. Zehr· 3 shared A. Nekrutenko· 2 shared D. P. Martin· 2 shared S. Weaver· 2 shared A. Choi· 1 shared A. De Klerk· 1 shared A. J. Greaney· 1 shared

Activity by Year

2022-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 32 mutual co-author links

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4 shared papersEvolutionary Biology

S. L. Kosakovsky Pond

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4 papers

Recent·Most cited

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

Natural selection differences detected in key protein domains between non-pathogenic and pathogenic Feline Coronavirus phenotypes

J. D. Zehr, S. L. Kosakovsky Pond, J. K. Millet, X. A. Olarte-Castillo, A. G. Lucaci, S. S. D, K. Ceres, A. Choi, G. Whittaker, L. B. Goodman, M. J. Stanhope

This study identifies natural selection differences in key protein domains between non-pathogenic FECV and pathogenic FIPV FCoVs, highlighting sites under positive selection associated with FIP development.

bioRxiv · Jan 11, 2023Evolutionary Biology

Human HspB1, HspB3, HspB5 and HspB8: Shaping these Disease Factors during Vertebrate Evolution

R. Benndorf, R. Velazquez, J. D. Zehr, S. L. Kosakovsky Pond, J. L. Martin, A. G. Lucaci

This study examines the evolutionary forces shaping four sHSPs (HspB1, HspB3, HspB5, HspB8) in vertebrates and links their selective pressures to disease-associated mutations.

bioRxiv · Feb 24, 2022Evolutionary Biology

Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function

D. P. Martin, S. Lytras, A. G. Lucaci, W. Maier, B. Gruning, S. D. Shank, S. Weaver, O. S. MacLean, R. J. Orton, P. Lemey, M. F. Boni, H. Tegally, G. W. Harkins, C. Scheepers, J. N. Bhiman, , S. L. Kosakovsky Pond

The paper identifies 13 rare mutations in the Omicron S-gene that cluster in functionally important regions and likely impact Spike function, suggesting cooperative interactions that mitigate fitness costs.

bioRxiv · Jan 14, 2022 · PreprintEvolutionary Biology