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 …

Strategies for efficient numerical implementation of hybrid multi-scale agent-based models to describe biological systems

NA Cilfone, DE Kirschner, JJ Linderman - Cellular and molecular …, 2015 - Springer
Biologically related processes operate across multiple spatiotemporal scales. For
computational modeling methodologies to mimic this biological complexity, individual scale …

Computational immunology meets bioinformatics: the use of prediction tools for molecular binding in the simulation of the immune system

N Rapin, O Lund, M Bernaschi, F Castiglione - PloS one, 2010 - journals.plos.org
We present a new approach to the study of the immune system that combines techniques of
systems biology with information provided by data-driven prediction methods. To this end …

Gene regulatory network modeling of macrophage differentiation corroborates the continuum hypothesis of polarization states

A Palma, AS Jarrah, P Tieri, G Cesareni… - Frontiers in …, 2018 - frontiersin.org
Macrophages derived from monocyte precursors undergo specific polarization processes
which are influenced by the local tissue environment: classically activated (M1) …

How the interval between prime and boost injection affects the immune response in a computational model of the immune system

F Castiglione, F Mantile… - … methods in medicine, 2012 - Wiley Online Library
The immune system is able to respond more vigorously to the second contact with a given
antigen than to the first contact. Vaccination protocols generally include at least two doses …

[HTML][HTML] The role of low-grade inflammation and metabolic flexibility in aging and nutritional modulation thereof: a systems biology approach

D Calçada, D Vianello, E Giampieri, C Sala… - Mechanisms of ageing …, 2014 - Elsevier
Aging is a biological process characterized by the progressive functional decline of many
interrelated physiological systems. In particular, aging is associated with the development of …

Cellular and population plasticity of helper CD4+ T cell responses

G Magombedze, PBJ Reddy, S Eda… - Frontiers in …, 2013 - frontiersin.org
Vertebrates are constantly exposed to pathogens, and the adaptive immunity has most likely
evolved to control and clear such infectious agents. CD4+ T cells are the major players in …

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 …

Modeling biology spanning different scales: an open challenge

F Castiglione, F Pappalardo, C Bianca… - BioMed research …, 2014 - Wiley Online Library
It is coming nowadays more clear that in order to obtain a unified description of the different
mechanisms governing the behavior and causality relations among the various parts of a …

Placebo‐controlled randomized clinical trial on the immunomodulating activities of low‐and high‐dose bromelain after oral administration–new evidence on the …

S Müller, R März, M Schmolz, B Drewelow… - Phytotherapy …, 2013 - Wiley Online Library
Bromelain has been used for treatment of inflammatory diseases for decades. However, the
exact mechanism of action remains poorly understood. While in vitro investigations have …