24 citations · 30 across the 6 of their papers we have counts for
6 papers
Generative diffusion model surrogates for mechanistic agent-based biological models
Tien Comlekoglu, J. Quetzalcoatl Toledo-Marín, Douglas W. DeSimone +3
Mechanistic, multicellular, agent-based models are commonly used to investigate tissue, organ, and organism-scale biology at single-cell resolution. The Cellular-Potts Model (CPM)…
Surrogate modeling of Cellular-Potts Agent-Based Models as a segmentation task using the U-Net neural network architecture
Tien Comlekoglu, J. Quetzalcóatl Toledo-Marín, Tina Comlekoglu +4
The Cellular-Potts model is a powerful and ubiquitous framework for developing computational models for simulating complex multicellular biological systems. Cellular-Potts models (…
From FAIR to CURE: Guidelines for Computational Models of Biological Systems
Herbert M. Sauro, Eran Agmon, Michael L. Blinov +48
Guidelines for managing scientific data have been established under the FAIR principles requiring that data be Findable, Accessible, Interoperable, and Reusable. In many scientific…
EFECT: A Method to Quantify the Reproducibility of Stochastic Simulations
T. J. Sego, Matthias König, Luis L. Fonseca +13
Reproducibility is a fundamental requirement for validating scientific claims in computational research. Stochastic computational models are widely used in fields such as systems b…
Forum on immune digital twins: a meeting report
Reinhard Laubenbacher, Fred Adler, Gary An +16
Medical digital twins are computational models of human biology relevant to a given medical condition, which can be tailored to an individual patient, thereby predicting the course…
libRoadRunner: A High Performance SBML Simulation and Analysis Library
Endre T. Somogyi, Jean-Marie Bouteiller, James A. Glazier +4
This paper presents libRoadRunner, an extensible, high-performance, cross-platform, open-source software library for the simulation and analysis of models \ expressed using Systems…