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Establishing a massively parallel computational model of the adaptive immune response

Publication ,  Journal Article
Martin, A; Nezdyur, M; Tanade, C; Randles, A
Published in: Journal of Computational Science
May 1, 2025

Parallel agent-based models of the adaptive immune response can efficiently recapitulate emerging spatiotemporal properties of T-cell motility during clonal selection across multiple length and time scales. Here, we present a distributed, three-dimensional (3D) computational model of T-cell priming, and associated parallel data structures and algorithms that enable fully deterministic cell simulations at scale. We demonstrate performant usage of modern clusters with over 350x speedup, and explore trade-offs between simulation accuracy, code complexity, and communication overhead. This study highlights the potential for parallel 3D models to explore immunological research questions and guides implementation and performance considerations for this class of biology-inspired agent-based models.

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Published In

Journal of Computational Science

DOI

ISSN

1877-7503

Publication Date

May 1, 2025

Volume

87

Related Subject Headings

  • 4901 Applied mathematics
  • 4606 Distributed computing and systems software
  • 4602 Artificial intelligence
  • 0806 Information Systems
  • 0802 Computation Theory and Mathematics
 

Citation

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Martin, A., Nezdyur, M., Tanade, C., & Randles, A. (2025). Establishing a massively parallel computational model of the adaptive immune response (Accepted). Journal of Computational Science, 87. https://doi.org/10.1016/j.jocs.2025.102555
Martin, A., M. Nezdyur, C. Tanade, and A. Randles. “Establishing a massively parallel computational model of the adaptive immune response (Accepted).” Journal of Computational Science 87 (May 1, 2025). https://doi.org/10.1016/j.jocs.2025.102555.
Martin A, Nezdyur M, Tanade C, Randles A. Establishing a massively parallel computational model of the adaptive immune response (Accepted). Journal of Computational Science. 2025 May 1;87.
Martin, A., et al. “Establishing a massively parallel computational model of the adaptive immune response (Accepted).” Journal of Computational Science, vol. 87, May 2025. Scopus, doi:10.1016/j.jocs.2025.102555.
Martin A, Nezdyur M, Tanade C, Randles A. Establishing a massively parallel computational model of the adaptive immune response (Accepted). Journal of Computational Science. 2025 May 1;87.
Journal cover image

Published In

Journal of Computational Science

DOI

ISSN

1877-7503

Publication Date

May 1, 2025

Volume

87

Related Subject Headings

  • 4901 Applied mathematics
  • 4606 Distributed computing and systems software
  • 4602 Artificial intelligence
  • 0806 Information Systems
  • 0802 Computation Theory and Mathematics