Winston Anthony

Winston E. Anthony

Data Scientist at PNNL

I am a Data Scientist with a passion for data science at the intersection of biology and machine learning. Currently, I work at the Pacific Northwest National Laboratory (PNNL) in Seattle, WA.

My research focuses on understanding complex biological systems through multi-omic approaches, combining metagenomics, transcriptomics, and metabolomics data to uncover insights about host-microbe interactions and microbial community dynamics.

Current Research

  • Neurosymbolism and Knowledge Graphs for Bacterial Metabolism: Co-Principle investigator developing neurosymbolic/knowledge graphs for biological discovery.
  • Laboratory Autonomy: Biological investment advisor for the PNNL autonomy initiative. Implementing adaptive control for large-scale autonomous growth assays.
  • Microbiome Modeling: Genome-scale modeling for identifying microbe-microbe interactions using in silico synthetic communities
  • Spatial Multi-omics: Analyzing environmental stress effects on soil microbial communities

Background

I earned my Ph.D. in Computational Biology from Washington University in St. Louis School of Medicine, where I studied with Dr. Gautam Dantas. My dissertation research focused on understanding the effects of antibiotics on the human gut microbiome and resistome.

Prior to my doctoral work, I was a Research Fellow at Harvard Medical School, studying aging in C. elegans, and earned my B.S. in Biology from the University of Massachusetts Amherst.

Feel free to reach out via email or connect with me on GitHub or X.

News

Dec 01, 2025 🎉 Updated standards for reporting environmental and host-associated microbiomes are now live Nature Microbiology!
Jul 15, 2024 📝 New article on NMDC: “Metadata – A love letter to your future self” - Community-driven metadata standards to promote open and accessible science.
Jan 15, 2024 🚀 NASA funds Pacific Northwest consortium to advance life sciences research in space! Proud to be part of the BioS-ENDURES team.
Apr 12, 2022 🎉 Our paper on antibiotics and the gut microbiome is published in Cell Reports! Featured in The Scientist Magazine.

Selected Publications

STREAMS guidelines: standards for technical reporting in environmental and host-associated microbiome studies

Kelliher, J.M., Mirzayi, C., Bordenstein, S.R., Oliver, A., Kellogg, C.A., Hatcher, E.L., Berg, M., Baldrian, P., Aljumaah, M., Miller, C.M.L. and Mungall, C.

Nature Microbiology, 2025

From Soil to Sequence: Filling the Critical Gap in Genome-Resolved Metagenomics is Essential to the Future of Soil Microbial Ecology

Anthony, W.E., Allison, S.D., Broderick, C.M. et al.

Environmental Microbiome, 2024

Increased triacylglycerol production in Rhodococcus opacus by overexpressing transcriptional regulators

Anthony, W.E., Geng W., Diao J., Carr R., Wang B., Ning J., Moon T.S., Dantas G., Zhang F.

BMC Biotechnology for Biofuels and Bioproducts, 2024

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