Alexey Markin
Computational Research Biologist
Ames, Iowa, United States
Summary
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Senior🎓
Top SchoolAlexey Markin is a Computational Research Biologist with 11 years of experience applying algorithm design and statistical analysis to phylogenetics and virus evolution. As a Staff Scientist at USDA-ARS, he leads computational inference and analysis of influenza A dynamics at human–swine and human–avian interfaces, translating complex evolutionary models into actionable insights for surveillance. His PhD-level background in computer science and prior postdoctoral work underpin expertise in tackling inherently hard computational problems and developing phylogenetic networks. Alexey blends research rigor with practical software skills from earlier industry internships (including image processing and 3D imaging at Google), enabling cross-disciplinary solutions that bridge theory and deployment. He is based in Ames, Iowa, and is known for combining deep technical breadth with a focus on pathogen evolution—often surfacing nonobvious evolutionary pathways through novel computational approaches.
11 years of coding experience
10 years of employment as a software developer
Doctor of Philosophy (PhD), Computer Science, Doctor of Philosophy (PhD), Computer Science at Iowa State UniversityBachelor's degree, Computer Software Engineering, Bachelor's degree, Computer Software Engineering at Higher School of Economics
Github Skills (1)
inference3
Programming languages (2)
Github contributions (5)
flu-crew/parnas
Feb 2022 - Dec 2022
Phylogenetic maximum representation sampling: choosing most representative strains or taxa
Contributions:6 releases, 27 commits, 1 PR in 10 months
flu-crew/TreeSort
Jul 2023 - Dec 2025
Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
Contributions:2 releases, 25 pushes, 1 branch in 2 years 5 months
inference
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