Research Interests
I am passionate about using data to solve real-world problems and create transformative tools that improve systems, strategies, and lives. My research experience began at the molecular level in neuroscience and quickly shifted to applying molecular techniques to aquaculture research questions as I came to understand that US aquaculture has a largely untapped potential to enhance food security and drive economic growth via the integration of these emerging technologies. Over time, my interests have grown to span the life sciences and beyond—focusing on how data science, particularly artificial intelligence and machine learning (AI/ML), can be applied across domains to drive disruptive innovation and practical change.
I specialize in integrating AI/ML approaches into analysis pipelines of large-scale omics data (e.g., genomic, transcriptomic, metabolomic, proteomic, epigenetic) to reveal biological insights and develop actionable tools. My current efforts include building high-throughput data pipelines, improving genomic resources for non-model species, and leading interdisciplinary collaborations to translate scientific discovery into deployable technologies for the aquaculture industry.
Equally important to me is mentoring and outreach. I view training and community engagement as essential components of building tools that are understood, trusted, and used. Whether guiding students, developing educational resources, or collaborating with stakeholders, I prioritize accessibility and integration to ensure that data-driven innovations meet real needs and leave lasting impact.
Refereed Publications
Andersen, L.K., Thompson, N.F., Abernathy, J.W., Ahmed, R.O., Ali, A.R.E., Al-Tobasei, R., Beck, B.H., Calla, B., Delomas, T.A., Dunham, R.A., Elsik, C.G., Fuller, S.A., García, J.C., Gavery, M.R., Hollenbeck, C.M., Johnson, K.M., Kunselman, E., Legacki, E.L., Liu, S., Liu, Z., Martin, B., Matt, J.L., May, S.A., Older, C.E., Overturf, K., Palti, Y., Peatman, E.J., Peterson, B.C., Phelps, M.P., Plough, L.V., Polinski, M.P., Proestou, D.A., Purcell, C.M., Quiniou, S.M.A., Raymo, G., Rexroad, C.E., Riley, K.L., Roberts, S.B., Roy, L.A., Salem, M., Simpson, K., Waldbieser, G.C., Wang, H., Waters, C.D., and Reading, B.J. on behalf of The Aquaculture Genomics, Genetics and Breeding Workshop. 2025. Advancing genetic improvement in the omics era: status and priorities for United States aquaculture. BMC Genomics, 26(1), 155. DOI: 10.1186/s12864-025-11247-z.
Andersen, L.K., Goller, C.C., Samsa, L.A., and Sengupta, A. 2025. Navigating computational resources for the CRISPR classroom. In: Wolyniak, M.J., Pattison, D.L., Pieczynski, J.N., Santisteban, M.S. (eds) Introduction to CRISPR-Cas9 Techniques. Learning Materials in Biosciences (pp. 163-189). Springer, Cham. DOI: 10.1007/978-3-031-73734-3_11.
Andersen, L.K., Abernathy, J.W., Farmer, B.D., Lange, M.D., Sankappa, N.M., McEntire, M.E., and Rawles, S.D. 2025. Analysis of striped bass (Morone saxatilis) and white bass (M. chrysops) spleen transcriptome following Streptococcus iniae infection. Marine Biotechnology, 27(2), 51. DOI: 10.1007/s10126-025-10431-2.
Andersen, L.K. and Reading, B.J. 2024. A supervised machine learning workflow for the reduction of highly dimensional biological data. Artificial Intelligence in the Life Sciences, 5, 100090. DOI: 10.1016/j.ailsci.2023.100090.
Rajab, S.A., Andersen, L.K., Kenter, L.W., Berlinsky, D.L., Borski, R.J., McGinty, A.S., Ashwell, C.M., Ferket, P.R., Daniels, H.V., and Reading, B.J. 2024. Combinatorial metabolomic and transcriptomic analysis of muscle growth in hybrid striped bass (female white bass Morone chrysops x male striped bass M. saxatilis). BMC Genomics, 25(1), 580. DOI: 10.1186/s12864-024-10325-y.
Andersen, L.K., Abernathy, J.W., Farmer, B.D., Lange, M.D., McEntire, M.E., and Rawles, S.D. 2024. Gene expression profiles of white bass (Morone chrysops) and hybrid striped bass (M. chrysops x M. saxatilis) gill tissue following Flavobacterium covae infection. Comparative Immunology Reports, 6, 200144. DOI: 10.1016/j.cirep.2024.200144.
Andersen, L.K., Abernathy, J.W., Berlinsky, D.L., Bolton, G., Booker, M.M., Borski, R.J., Brown, T., Cerino, D., Ciaramella, M., Clark, R.W., Frinsko, M.O., Fuller, S.A., Gabel, S., Green, B.W., Herbst, E., Hodson, R.G., Hopper, M.S., Kenter, L.W., Lopez, F., McGinty, A.S., Nash, B., Parker, M., Pigg, S., Rawles, S., Riley, K., Turano, M.J., Webster, C.D., Weirich, C., Won, E., Woods III, L.C., and Reading, B.J. on behalf of The StriperHub. 2021. The status of striped bass Morone saxatilis as a commercially ready species for U.S. marine aquaculture. Journal of the World Aquaculture Society, 52(3), 710-730. DOI: 10.1111/jwas.12812. Invited manuscript.
Samsa L.A., Andersen, L.K., Groth, A.M., and Goller, C.C. 2020. CRISPR/Cas9 guide RNA design in silico activity. CourseSource, 7. DOI: 10.24918/cs.2020.46.
Andersen, L.K., Clark, R.W., Hopper, M.S., Hodson, R.G., Schilling, J., Daniels, H.V., Woods III, L.C., Berlinsky, D.L., Kovach, A.I., Kenter, L.W., McGinty, A.S., and Reading, B.J. 2021. Methods of domestic striped bass (Morone saxatilis) spawning that do not require the use of any hormone induction. Aquaculture, 533, 736025. DOI: 10.1016/j.aquaculture.2020.736025.
Andersen, L.K., Clark, R.W., McGinty, A.S., Hopper, M.S., Kenter, L.W., Salger, S.A., Schilling, J., Hodson, R.G., Kovach, A.I., Berlinsky, D.L., and Reading, B.J. 2021. Volitional tank spawning of domestic striped bass (Morone saxatilis) using human chorionic gonadotropin (hCG) and gonadotropin releasing hormone analogue (GnRHa)-induced ‘pace-setting’ females. Aquaculture, 532, 735967. DOI: 10.1016/j.aquaculture.2020.735967.
Reading, B.J., Andersen, L.K., Mushirobira, Y., Todo, T., Ryu, Y.-W., and Hiramatsu, N. 2018. Oogenesis and egg quality in aquaculture: Yolk formation and other factors influencing female fish fertility. Fishes, 3(4), 45. DOI: 10.3390/fishes3040045. Invited manuscript.
Ryan, S.F., Driscoll, L., Adamson, N., Aktipis, A., Andersen, L.K., Austin, R., Barnes, L., Beasley, M.R., Bedell, K.D., Bidell, K., Briggs, S., Chapman, B., Cooper, C., Corn, J., Creamer, N., Delborne, J.A., Domenico, P., Goodwin, J., Hjarding, A., Hulbert, J.M., Isard, S., Just, M.G., Kar Gupta, K., Lopez-Uribe, M., O’Sullivan, J., Landin, J., Landis, L., McKenney, E.A., Madden, A.A., Nichols, L.M., Ramaswamy, S., Reading, B.J., Russell, S., Shapiro, L.R., Shell, L., Sheard, J.K., Shoemaker, D.D., Sorger, D.M., Starling, C., Thakur, S., Vatsavai, R., Weinstein, M., Wimfrey, P., and Dunn, R.R. 2018. The role of citizen science in the history and future of agriculture and food science. Proceedings of the Royal Society B, 285(1891), 20181977. DOI: 10.1098/rspb.2018.1977. Invited manuscript.
Linnea Andersen 