Latest papers on Agent-Based Modeling in PubMed

This repository is an Example using GitHub Actions [egga] for the Advanced Programming with R class. The project consists of a quarto document updated once a week or whenever there’s a push or pull request. It performs a search on PubMed looking for the latest papers about Agent-Based Models. The last update was on 2026-04-05 00:13:00.

1. Agent-based simulation for multi-resource-constrained scheduling of scattered atypical repetitive projects.

   Sultan RA, Hamdy K, Essawy YAS.

   Sci Rep. 2026 Apr 3. doi: 10.1038/s41598-026-42832-1. Online ahead of print.

   This study proposes a simulation-optimization framework implemented in AnyLogic that integrates GIS-enabled agent-based modeling, stochastic simulation, and a GA-based optimization experiment to enable exploration of multi-resource-constrained scheduling deci …

2. Diagnostic Accuracy of Large Language Models for Rare Diseases: A Systematic Review and Meta-Analysis.

   Nguyen MH, Yang CT, Cassini TA, Ma F, Hamid R, Bastarache L, Peterson JF, Xu H, Li L, Ma S, Shyr C.

   medRxiv [Preprint]. 2026 Mar 27:2026.03.26.26349194. doi: 10.64898/2026.03.26.26349194.

   BACKGROUND: Large language models (LLMs) have been evaluated as tools to assist rare disease diagnosis, yet evidence on their accuracy remains fragmented. …The pooled R@1 was 43.3% (95% CI 35.1-51.6; I (2) =99.6%). Augmented LLM systems (agent-based reasoni …

3. Agent-Based Modeling of Idiopathic Lung Fibrosis and Mechanistic Treatments.

   Gunputh ND, Kilikian E, Miranda CA, Peirce SM, Ford Versypt AN.

   bioRxiv [Preprint]. 2026 Mar 25:2026.03.22.713503. doi: 10.64898/2026.03.22.713503.

   Agent-based modeling (ABM) is a computational method for predicting the emergent outcomes of interacting, autonomous individuals in a complex system. …The ABM and the analysis files are shared to facilitate model reuse. By integrating computational …

4. A distributed socio-hydrological framework for integrating perception and groundwater dynamics in farmers’ crop choice modeling.

   Soleimanzadeh Z, Ahmadi A.

   Sci Rep. 2026 Apr 1. doi: 10.1038/s41598-026-44157-5. Online ahead of print.

5. Free information disrupts even Bayesian crowds.

   Stein J, Cruz S, Grossi D, Testori M.

   Proc Natl Acad Sci U S A. 2026 Apr 7;123(14):e2518472123. doi: 10.1073/pnas.2518472123. Epub 2026 Apr 1.

   A core tenet underpinning the conception of contemporary information networks, such as social media platforms, is that users should not be constrained in the amount of information they can freely and willingly exchange with one another about a given topic. By means of a computati …

6. Channel Allocation and Equity in Preventive Campaigns for Older Adults: Agent-Based Modeling Study.

   Lee J, Park J, Kim Y, Kong DJ.

   J Med Internet Res. 2026 Apr 1;28:e88429. doi: 10.2196/88429.

   OBJECTIVE: This study aimed to develop and apply a data-driven agent-based model as a strategic planning tool for preventive campaigns targeting older adults, comparing channel allocation, personalization, and loss framing options under explicit budget and eq …

7. Modeling tumor transport and growth with poroelastic biopolymer networks.

   Li Z, Ren Y, Kemkar S, Mollenkopf P, Kochanowski J, Janmey PA, Purohit PK, Radhakrishnan R, Vining KH.

   Soft Matter. 2026 Apr 1. doi: 10.1039/d6sm00060f. Online ahead of print.

   The mechanical properties of the extracellular matrix (ECM) regulate tumor growth and invasion in the tumor microenvironment. Models of biopolymer networks have been used to investigate the impact of elasticity and viscoelasticity of the ECM on tumor behavior. …This fram …

8. Optimization of infectious disease intervention measures using reinforcement learning with UK COVID-19 epidemic data.

   Zhang B, Chen Y, Li H, Zu Z.

   Sci Rep. 2026 Mar 31;16(1):10627. doi: 10.1038/s41598-026-39377-8.

   We establish a decision-making framework based on an individual agent-based transmission model, utilizing reinforcement learning to continuously explore and develop a strategy function. The framework’s validity is verified through both experimental and theore …

9. Multiscale modeling of the spatial structure of stem cells in neuroblastoma patient-derived tumoroids reveals a critical role for a short-range diffusive process.

   Nguyen TNT, Koering C, Vallin E, Gonin-Giraud S, Broutier L, Bernard S, Crauste F, Gandrillon O.

   PLoS Comput Biol. 2026 Mar 31;22(3):e1014137. doi: 10.1371/journal.pcbi.1014137. Online ahead of print.

   In order to better understand the set of rules needed for generating such structures, we implemented a multiscale agent-based neuroblastoma tumoroid model. Model rules specify single cell’s fate based on their intracellular content, which dynamically e …

10. Virtual cell/virtual cell like: The key to unlocking a new era of HIV/AIDS treatment ?

    Du Q, Wang M, Zhuang Y, Gu Q, Qi W.

    Microb Pathog. 2026 Mar 28;215:108459. doi: 10.1016/j.micpath.2026.108459. Online ahead of print.

    By reviewing existing literature and research findings, we find that while the term “Virtual Cell” has not been widely and standardized applied in Human Immunodeficiency Virus (HIV) research, its core concept simulating HIV infection, immune responses, and therapeutic interventio …

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