Principles of synthetic biology

KL Garner - Essays in biochemistry, 2021 - portlandpress.com
In synthetic biology, biological cells and processes are dismantled and reassembled to
make novel systems that do useful things. Designs are encoded by deoxyribonucleic acid …

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 …

COVID-ABS: An agent-based model of COVID-19 epidemic to simulate health and economic effects of social distancing interventions

PCL Silva, PVC Batista, HS Lima, MA Alves… - Chaos, Solitons & …, 2020 - Elsevier
The COVID-19 pandemic due to the SARS-CoV-2 coronavirus has directly impacted the
public health and economy worldwide. To overcome this problem, countries have adopted …

A multi-stage representation of cell proliferation as a Markov process

CA Yates, MJ Ford, RL Mort - Bulletin of mathematical biology, 2017 - Springer
The stochastic simulation algorithm commonly known as Gillespie's algorithm (originally
derived for modelling well-mixed systems of chemical reactions) is now used ubiquitously in …

Agent‐based modeling in molecular systems biology

M Soheilypour, MRK Mofrad - BioEssays, 2018 - Wiley Online Library
Molecular systems orchestrating the biology of the cell typically involve a complex web of
interactions among various components and span a vast range of spatial and temporal …

Multiscale coupling of an agent-based model of tissue fibrosis and a logic-based model of intracellular signaling

SM Rikard, TL Athey, AR Nelson… - Frontiers in …, 2019 - frontiersin.org
Wound healing and fibrosis following myocardial infarction (MI) is a dynamic process
involving many cell types, extracellular matrix (ECM), and inflammatory cues. As both …

Agent-based modelling for tourism research

A Baktash, A Huang, E De La Mora Velasco… - Current Issues in …, 2023 - Taylor & Francis
Managing tourism destinations has become increasingly challenging due to the tourism
ecosystem's complex nature. Tourism destinations can be seen as complex systems …

[HTML][HTML] Multiscale modeling in disease

ANF Versypt - Current opinion in systems biology, 2021 - Elsevier
Multiscale computational modeling aims to connect the complex networks of effects at
different length and/or time scales. For example, these networks often include intracellular …

Modeling cancer immunoediting in tumor microenvironment with system characterization through the ising-model Hamiltonian

A Rojas-Domínguez, R Arroyo-Duarte… - BMC …, 2022 - Springer
Abstract Background and objective Cancer Immunoediting (CI) describes the cellular-level
interaction between tumor cells and the Immune System (IS) that takes place in the Tumor …

Fine-grained agent-based modeling to predict covid-19 spreading and effect of policies in large-scale scenarios

G Lombardo, M Pellegrino, M Tomaiuolo… - IEEE Journal of …, 2022 - ieeexplore.ieee.org
Modeling and forecasting the spread of COVID-19 remains an open problem for several
reasons. One of these concerns the difficulty to model a complex system at a high resolution …