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A Complex, Integrative Agent-Based Model of Disinformation Cascades.
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Bayesian Calibration of Stochastic Agent Based Model via PCA Based Surrogate Modeling
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Calibration of stochastic agent-based model with Gaussian process surrogate and Stein variational inference
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Towards the Development of a Framework for Interpretable Hierarchical Calibration of Agent-Based Models
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Global Sensitivity Analysis for Epidemiological Agent-Based Models to Inform Calibration: Challenges and Priorities
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Reinforcement Learning in agent-based modeling to reduce carbon emissions in transportation
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Establishing Digital Twins for Non-Proliferation of Secure Facilities under Low Data Availability with Agent-Based Modeling, Deep Neural Network Surrogates, and Virtual Reality
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Developing Surrogates for Epidemic Agent-Based Models via Scientific Machine Learning
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Generative diffusion model surrogates for mechanistic agent-based biological models
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) is a powerful and popular framework for developing and interrogating these models. CPMs become computationally expensive at large space- and time- scales making application and investigation of developed models difficult. Surrogate models may allow for the accelerated evaluation of CPMs of complex biological systems. However, the stochastic nature of these models means each set of parameters may give rise to different model configurations, complicating surrogate model development. In this work, we leverage denoising diffusion probabilistic models (DDPMs) to train a generative AI surrogate of a CPM used to investigate in vitro vasculogenesis. We describe the use of an image classifier to learn the characteristics that define unique areas of a 2-dimensional parameter space. We then apply this classifier to aid in surrogate model selection and verification. Our CPM model surrogate generates model configurations 20,000 timesteps ahead of a reference configuration and demonstrates approximately a 22x reduction in computational time as compared to native code execution. Our work represents a step towards the implementation of DDPMs to develop digital twins of stochastic biological systems.
Neural Universal Differential Equation Hypernetwork Surrogates for Agent-Based Disease Models
Presentation for SIAM CSE 2025 on new surrogate modeling for epidemiological agent-based models
The Chicago Social Interaction Model (ChiSIM)
ChiSIM is a framework for implementing agent-based models that simulate the mixing of a synthetic population. In a ChiSIM based model, each agent, that is, each person in the simulated population, resides in a place (a household, dormitory or retirement home/long term care facility, for example), and moves among other places such as workplaces, homes, clinics, and community resources. Agents typically move between places according to their domain specific activity profile, such that each agent has a profile that determines at what times throughout the day they occupy a particular location. Once in a place, an agent mixes with other agents in some model or domain-specific way. For example, an agent may expose other agents to a disease in an epidemiological model.
System Analysis Modeling and Intermodal Transportation for Commercial Spent Nuclear Fuel
The United States Department of Energy (DOE) has long term goals to develop solutions for managing the nation’s spent nuclear fuel (SNF) and high-level waste (HLW) inventory. The Integrated Waste Management (IWM) program under the DOE office of Nuclear Energy (DOE-NE) is employing system-level engineering and analysis principles to inform potential future waste management system architectures. Managing the spent nuclear waste requires the use of system-level analysis software that takes various aspects of the fuel cycle into account like waste generation, on-site/centralized storage, transportation infrastructure, and long-term disposal. The Next Generation System Analysis Model (NGSAM) is an agent-based model that was developed to simulate the transportation and storage of SNF and HLW. As an agent-based model, NGSAM has the capability to detail the interaction and movement of individual components and groups, such as rail cars and casks. The SNF inventory from commercial nuclear reactors is currently in temporary storage at multiple locations spread across the United States. Shipping of SNF from these locations relies on one of three transportation modes: rail, heavy-haul truck, or barge. Out of the three modes identified, rail is generally the most preferred due to the size of the canisters and casks the SNF would be shipped in. However, under some scenarios, a direct rail route might not be readily available to a reactor site or improving the rail infrastructure at shutdown sites might be too cost-prohibitive for utilities to opt for a direct rail transfer. Under such scenarios, using a barge or heavy haul truck to de-inventory the site and transfer the SNF to a nearby intermodal transfer site with adequate rail infrastructure where the payload could be transferred to a rail car might prove to be an attractive option. This work initially presents the various intermodal transportation options that could be used to transfer SNF from reactor sites to rail cars. This is followed by exploring the operational steps in each of these modes to move the SNF from a reactor site and transfer it to a rail car. This work also presents the procedure of implementing the intermodal transfer methodology in NGSAM using various Java methods. Finally, the process times for accomplishing each of the individual steps are furnished. The implementation ideology, assumptions, and future steps are presented in this work.
Evaluating efficacy of indoor non-pharmaceutical interventions against COVID-19 outbreaks with a coupled spatial-SIR agent-based simulation framework
Contagious respiratory diseases, such as COVID-19, depend on sufficiently prolonged exposures for the successful transmission of the underlying pathogen. It is important that organizations evaluate the efficacy of non-pharmaceutical interventions aimed at mitigating viral transmission among their personnel. We have developed a operational risk assessment simulation framework that couples a spatial agent-based model of movement with an agent-based SIR model to assess the relative risks of different intervention strategies. By applying our model on MIT’s Stata center, we assess the impacts of three possible dimensions of intervention: one-way vs unrestricted movement, population size allowed onsite, and frequency of leaving designated work location for breaks. We find that there is no significant impact made by one-way movement restrictions over unrestricted movement. Instead, we find that reducing the frequency at which individuals leave their workstations combined with lowering the number of individuals admitted below the current recommendations lowers the likelihood of highly connected individuals within the contact networks that emerge, which in turn lowers the overall risk of infection. We discover three classes of possible interventions based on their epidemiological effects. By assuming a direct relationship between data on secondary attack rates and transmissibility in the agent-based SIR model, we compare relative infection risk of four respiratory illnesses, MERS, SARS, COVID-19, and Measles, within the simulated area, and recommend appropriate intervention guidelines.
Nested active learning for efficient model contextualization and parameterization: pathway to generating simulated populations using multi-scale computational models
There is increasing interest in the use of mechanism-based multi-scale computational models (such as agent-based models (ABMs)) to generate simulated clinical populations in order to discover and evaluate potential diagnostic and therapeutic modalities. The description of the environment in which a biomedical simulation operates (model context) and parameterization of internal model rules (model content) requires the optimization of a large number of free parameters. In this work, we utilize a nested active learning (AL) workflow to efficiently parameterize and contextualize an ABM of systemic inflammation used to examine sepsis. Contextual parameter space was examined using four parameters external to the model’s rule set. The model’s internal parameterization, which represents gene expression and associated cellular behaviors, was explored through the augmentation or inhibition of signaling pathways for 12 signaling mediators associated with inflammation and wound healing. We have implemented a nested AL approach in which the clinically relevant (CR) model environment space for a given internal model parameterization is mapped using a small Artificial Neural Network (ANN). The outer AL level workflow is a larger ANN that uses AL to efficiently regress the volume and centroid location of the CR space given by a single internal parameterization. We have reduced the number of simulations required to efficiently map the CR parameter space of this model by approximately 99%. In addition, we have shown that more complex models with a larger number of variables may expect further improvements in efficiency.
Modern Warfare: An M and S Examination of the Dynamic Impact of Warlords and Insurgents on State Stability
9/11 changed the world as we knew it. Part of this change was to redirect the military of the United States away from focusing primarily on conventional conflict to a primary focus on unconventional or irregular conflict. This change required a tremendous learning effort by the military and their supporting research and development community. This learning effort included relearning of old but largely forgotten lessons as well as acquiring newly discovered knowledge. During the process of our immediate 9/11 response, we identified that we were engaged in Iraq and Afghanistan in an insurgency. Subsequently, our focus converged upon the description of insurgencies and the requirements for counterinsurgency. This paper argues that emerging conditions now allow the re-evaluation of the type of conflict occurring today and into the foreseeable future: that we, including the modeling and simulation world, emerge from a singular focus on orthodox insurgencies and start to consider the consequences and opportunities of the complexity of current conflicts. As an example of complexity, this paper will use the relatively common phenomenon of the Warlord or Warlordism. The paper will provide a definition of this phenomenon and then describe the implications for modelers. The paper will conclude by demonstrating the impact of incorporating this one rather prosaic complexity into an insurgency model, using agent based modeling (ABM).
Exploring PV Circularity by Modeling Socio-Technical Dynamics of Modules’ End-of-Life Management
The circular economy (CE) tackles environmental and resource scarcity issues by maximizing value retention in the economy. The concept implies design strategies such as reducing the use of materials or improving products’ durability and end-of-life (EOL) strategies, for example, reusing products and components and recycling materials. With an estimated 80 million tons of global cumulative EOL photovoltaic (PV) modules, applying CE principles to the PV industry could alleviate resource scarcity issues while also providing economic benefits. However, transitioning to a CE may imply changes in organizations and consumer behaviors. In this context, assessment of CE strategies may require accounting for behavioral change, a requirement that methods from complex system science such as agent-based modeling meet. Thus, this paper uses an agent-based modeling (ABM) approach to study circularity in the photovoltaics supply chain. Four types of agents are represented in the ABM: PV owners, installers, recyclers, and manufacturers. Moreover, five possible EOL options – including three CE strategies – are modeled. Departing from traditional techno-economic analysis, the model includes techno-economic factors as well as social factors to model EOL management decisions. Results show that each dollar decrease in the recycling fees improves the recycling rate by roughly 1.1%. However, excluding social factors underestimates the effect that lower recycling prices have on material circularity.