Publications

Published as Ali R. Vahdati. See the full publication profile on Google Scholar.

Books and Book Chapters

  1. Three Worlds by Karl Popper - translation into Persian (download). ترجمه‌ی سخنرانی «سه جهان» از کارل پوپر (بارگیری)
  2. R. Vahdati, Ali, Agent-based epidemic modeling in Julia. Machine Learning Perspectives of Agent-Based Models, 2025. Springer, ISBN: 978-3-031-73353-6 978-3-031-73354-3. https://doi.org/10.1007/978-3-031-73354-3_9

Selected Articles

  1. Shih-Wei Fang, Pasquale Raia, Aneesh Sundaresan, Chiara Barbieri, Jiaoyang Ruan, Ali R. Vahdati, Elke Zeller, Christoph Zollikofer, Axel Timmermann. Milanković cycles and Cultural Evolution as important Catalysts for Hominin Genetic Diversification. bioRxiv, 2026. https://doi.org/10.64898/2026.09.03.749301.
  2. Carlos J. Melián, Cecilia S. Andreazzi, Julia Astegiano, Víctor M. Eguíluz, Francisco Encinas-Viso, Philine G. D. Feulner, Luis J. Gilarranz, Paulo R. Guimarães Jr., Ruben Heleno, Weini Huang, François Massol, Jordi Moya-Laraño, Jelena Pantel, Cas Retel, Pooja Singh, Ali R. Vahdati, Blake Matthews. Biodiversity dynamics with complex genotype-to-phenotype architecture in multilayer networks. March 2026. https://doi.org/10.64898/2026.03.23.713274
  3. R. Vahdati, Ali, and Carlos J. Melián. EvoDynamics.jl: A Framework for Modeling Eco-Evolutionary Dynamics. Journal of Open Source Software 7, no. 79, 2022: 4775. https://doi.org/10.21105/joss.04775.
  4. A. R. Vahdati, J. D. Weissmann, A. Timmermann, M. P. de León, C. P. E. Zollikofer, Exploring Late Pleistocene hominin dispersals, coexistence and extinction with agent-based multi-factor models, Quaternary Science Reviews, 2022, 279, 107391.
  5. G. Datseris, A. R. Vahdati, T. C. DuBois, Agents.jl: a performant and feature-full agent-based modeling software of minimal code complexity, Simulation, 2022, 00375497211068820.
  6. R. Vahdati, A., Agents.jl: agent-based modeling framework in Julia. Journal of Open Source Software, 2019, 4(42), 1611, https://doi.org/10.21105/joss.01611.
  7. R. Vahdati A., Weissmann JD, Timmermann A, Ponce de León MS, Zollikofer CPE. Drivers of Late Pleistocene human survival and dispersal: an agent-based modeling and machine learning approach. Quaternary Science Reviews. 2019 Oct;221:105867, https://doi.org/10.1016/j.quascirev.2019.105867.
  8. Vahdati A. R., Wagner A., Population size affects adaptation in complex ways: simulations on empirical adaptive landscapes. Evolutionary Biology. 2017, https://doi.org/10.1007/s11692-017-9440-9.
  9. Vahdati A. R., Sprouffske K., Wagner A., Effect of population size and mutation rate on the evolution of RNA sequences on an adaptive landscape determined by RNA folding. International Journal Biological Sciences. 2017;13(9):1138–51, https://doi.org/10.7150/ijbs.19436.
  10. Vahdati A. R., Wagner A., 2016 Parallel or convergent evolution in human population genomic data revealed by genotype networks. BMC Evolutionary Biology, 16(1), 154, https://doi.org/10.1186/s12862-016-0722-0.
  11. Dall’Olio G. M., Vahdati A. R., Bertranpetit J., Wagner A., Laayouni H., 2014 VCF2Networks: applying genotype networks to single nucleotide variants data. Bioinformatics: 4–5, https://doi.org/10.1093/bioinformatics/btu650.
  12. Kaerst S.*, Vahdati A. R.*, Brockmann G., Hager R., 2012 Genomic imprinting and genetic effects on muscle traits in mice, BMC Genomics, 13:408, https://doi.org/10.1186/1471-2164-13-408. - * Equal contribution