Multiscale agent-based and hybrid modeling of the tumor immune microenvironment

KA Norton, C Gong, S Jamalian, AS Popel - Processes, 2019 - mdpi.com
Multiscale systems biology and systems pharmacology are powerful methodologies that are
playing increasingly important roles in understanding the fundamental mechanisms of …

[HTML][HTML] Host-pathogen interactions between the human innate immune system and Candida albicans—understanding and modeling defense and evasion strategies

S Dühring, S Germerodt, C Skerka, PF Zipfel… - Frontiers in …, 2015 - frontiersin.org
The diploid, polymorphic yeast Candida albicans is one of the most important human
pathogenic fungi. C. albicans can grow, proliferate and coexist as a commensal on or within …

Agent-based modeling of host–pathogen systems: The successes and challenges

AL Bauer, CAA Beauchemin, AS Perelson - Information sciences, 2009 - Elsevier
Agent-based models have been employed to describe numerous processes in immunology.
Simulations based on these types of models have been used to enhance our understanding …

Deep reinforcement learning and simulation as a path toward precision medicine

BK Petersen, J Yang, WS Grathwohl… - Journal of …, 2019 - liebertpub.com
Traditionally, precision medicine involves classifying patients to identify subpopulations that
respond favorably to specific therapeutics. We pose precision medicine as a dynamic …

Agent-based modeling of endotoxin-induced acute inflammatory response in human blood leukocytes

X Dong, PT Foteinou, SE Calvano, SF Lowry… - PloS one, 2010 - journals.plos.org
Background Inflammation is a highly complex biological response evoked by many stimuli. A
persistent challenge in modeling this dynamic process has been the (nonlinear) nature of …

Examining the controllability of sepsis using genetic algorithms on an agent-based model of systemic inflammation

RC Cockrell, G An - PLoS computational biology, 2018 - journals.plos.org
Sepsis, a manifestation of the body's inflammatory response to injury and infection, has a
mortality rate of between 28%-50% and affects approximately 1 million patients annually in …

[HTML][HTML] Utilizing the heterogeneity of clinical data for model refinement and rule discovery through the application of genetic algorithms to calibrate a high …

C Cockrell, G An - Frontiers in physiology, 2021 - frontiersin.org
Introduction: Accounting for biological heterogeneity represents one of the greatest
challenges in biomedical research. Dynamic computational and mathematical models can …

Multiscale modelling in immunology: a review

A Cappuccio, P Tieri, F Castiglione - Briefings in bioinformatics, 2016 - academic.oup.com
One of the greatest challenges in biomedicine is to get a unified view of observations made
from the molecular up to the organism scale. Towards this goal, multiscale models have …

Precision medicine as a control problem: Using simulation and deep reinforcement learning to discover adaptive, personalized multi-cytokine therapy for sepsis

BK Petersen, J Yang, WS Grathwohl, C Cockrell… - arXiv preprint arXiv …, 2018 - arxiv.org
Sepsis is a life-threatening condition affecting one million people per year in the US in which
dysregulation of the body's own immune system causes damage to its tissues, resulting in a …

Systems immunology: a survey of modeling formalisms, applications and simulation tools

V Narang, J Decraene, SY Wong, BS Aiswarya… - Immunologic …, 2012 - Springer
Immunological studies frequently analyze individual components (eg, signaling pathways) of
immune systems in a reductionist manner. In contrast, systems immunology aims to give a …