Submitted manuscripts:

• [S3] DN Lai, A Volkening, X Liu, Y Zhou.
  Hormonal signaling drives sex-type conversion and meristem formation in Ceratopteris.
  In review, 2026.
• [S2] Y Liu**, A Volkening.
  Multi-objective Bayesian inference in an agent-based model of zebrafish patterns via topological data analysis.
  In review, 2026.
• [S1] X Yang, N Khoudari**, A Yan, Y Geng, X Liu, A Volkening, Y Zhou.
  Coordinated cell division and growth drive meristem notch formation in Ceratopteris gametophytes.
  In review, 2026.

**Double asterisk denotes postdocs mentored, *asterisk denotes undergraduate or postbac students mentored

Journal publications:

• [J18] N Khoudari**, JT Nardini, A Volkening.
  Quantifying topological features and irregularities in zebrafish patterns using the sweeping-plane filtration.
  SIAM Journal on Applied Dynamical Systems, Accepted, 2026. (arXiv copy)
• [J17] MV Ciocanel, JT Nardini, KB Flores, EM Rutter, SS Sindi, A Volkening.
  Enhancing generalizability of model discovery across parameter space with multi-experiment equation learning for biological systems.
  PLOS Computational Biology, 22(4):e1014161, 2026. (arXiv copy)
• [J16] R Branstetter*, S Chian*, J Cromp*, WL He*, CM Lee*, M Liu*, E Mansell*, M Paranjape*, T Pattanashetty*, A Rodrigues*, A Volkening.
  How time and pollster history affect U.S. election forecasts under a compartmental modeling approach.
  SIAM Journal on Applied Dynamical Systems, 25(1):160-195, 2026. (arXiv copy)
• [J15] X Yang, A Yan, X Liu, A Volkening, Y Zhou.
  Single cell derived multicellular meristem: Insights into male-to-hermaphrodite conversion and de novo meristem formation in Ceratopteris.
  Development, 152(3):DEV204411, 2025.
• [J14] C Góngora-Canul, A Volkening, J Cuéllar, L Calderón, M Fernández-Campos, D Lee, J Salgado, A Cruz-Sancan, CD Cruz.
  Effect of initial inoculum on the temporal and spatial dynamics of wheat blast under field conditions in Bolivia.
  Phytopathology, 114(10):2273–2286, 2024.
• [J13] WD Martinson, A Volkening, M Schmidtchen, C Venkataraman, JA Carrillo.
  Linking discrete and continuous models of cell birth and migration.
  Royal Society Open Science, 11(232002), 2024. (arXiv copy)
• [J12] D Bhaskar, WY Zhang, A Volkening, B Sandstede, IY Wong.
  Topological data analysis of spatial patterning in heterogeneous cell populations: I. Clustering and sorting with varying cell-cell adhesion.
  npj Systems Biology and Applications, 9(43), 2023. (arXiv copy)
• [J11] E Cleveland*, A Zhu*, B Sandstede, A Volkening.
  Quantifying different modeling frameworks using topological data analysis: a case study with zebrafish patterns.
  SIAM Journal on Applied Dynamical Systems, 22(4), 2023. (arXiv copy)
• [J10] J Benson, M Bessonov, K Burke, S Cassani, M-V Ciocanel, DB Cooney, A Volkening.
  How do classroom-turnover times depend on lecture hall size?
  Mathematical Biosciences and Engineering, 20(5):9179-9207, 2023. (arXiv copy)
• [J9] B Shirman*, A Volkening.
  What does math have to do with patterns in fish?
  Frontiers for Young Minds, 10:834049, 2022.
  Supplementary website here.
• [J8] K Mallory, JR Abrams*, A Schwartz*, M-V Ciocanel, A Volkening, B Sandstede.
  Influenza spread on context-specific networks lifted from interaction-based diary data.
  Royal Society Open Science, 8(191876), 2021.
• [J7] A Volkening, DF Linder, MA Porter, GA Rempala.
  Forecasting elections using compartmental models of infection.
  SIAM Review, 62(4):837-865, 2020.
  • Described in a SIAM Research Nugget (Oct. 2020)
  • Covered in an article in Forbes (Oct. 2020)
  • Featured in a press release by SIAM (reproduced in sources including the California Business Journal)
  • Featured in Northwestern Now News (reproduced in sources including SciTechDaily)
• [J6] A Volkening.
  Linking genotype, cell behavior, and phenotype: multidisciplinary perspectives with a basis in zebrafish patterns.
  Current Opinion in Genetics and Development, 63:78-85, 2020.
• [J5] A Volkening, MR Abbott*, N Chandra*, B Dubois*, F Lim*, D Sexton*, B Sandstede.
  Modeling stripe formation on growing zebrafish tailfins.
  Bulletin of Mathematical Biology, 82:56, 2020. (arXiv copy)
• [J4] MR McGuirl, A Volkening, B Sandstede.
  Topological data analysis of zebrafish patterns.
  Proceedings of the National Academy of Sciences of the USA. 117(10):5113-5124, 2020.
  • Covered in an AMS Math in the Media column post (May 2020)
  • Featured in Brown News (reproduced in sources including Furturity and Science Daily)
• [J3] Y Chen, JA Gemmer, M Silber, A Volkening.
  Noise-induced tipping under periodic forcing: preferred tipping phase in a non-adiabatic forcing regime.
  Chaos 29(4):043119, 2019. (arXiv copy)
• [J2] A Volkening, B Sandstede.
  Iridophores as a source of robustness in zebrafish stripes and variability in Danio patterns.
  Nature Communications 9:3231, 2018.
  • Featured in Ohio State News (reproduced in sources including Phys.org and UPI.com)
  • Recommended by the F1000Prime program here
• [J1] A Volkening, B Sandstede.
  Modelling stripe formation in zebrafish: an agent-based approach.
  Journal of the Royal Society Interface 12(112):20150812, 2015.
  • Selected as cover image for Interface Volume 12, Issue 113
  • Featured in Fusion News, Brown News (reproduced in Science Daily and Futurity)

Book chapters (invited and refereed):

• [C3] A Volkening.
  Methods for quantifying self-organization in biology: a forward-looking survey and tutorial.
  In “The Mathematics of Movement: an Interdisciplinary Approach to Mutual Challenges in Animal Ecology and Cell Biology”, Springer; L Giuggioli, P Maini (eds.), 2026. (arXiv copy)
• [C2] A Volkening.
  A primer on data-driven modeling of complex social systems.
  In Proceedings of Symposia in Applied Mathematics, American Mathematical Society; HZ Brooks, M Feng, MA Porter, A Volkening (eds.), 80, 2025. (arXiv copy)
• [C1] JL Gevertz, Z Aminzare, KA Norton, J Perez-Velazquez, A Volkening, KA Rejniak.
  Emergence of Anti-Cancer Drug Resistance: Exploring the Importance of the Microenvironmental Niche via a Spatial Model.
  "Applications of Dynamical Systems in Biology and Medicine" (eds. A Radunskaya, T Jackson), IMA Volumes in Mathematics and its Applications, 158, Springer-Verlag: 2015. (arXiv copy).

Books:

• [B1] HZ Brooks, M Feng, MA Porter, A Volkening (editors).
  Mathematical and computational methods for complex social systems.
  Proceedings of Symposia in Applied Mathematics, 80, American Mathematical Society; Providence, RI, 2025.