[HTML][HTML] Minimally sufficient experimental design using identifiability analysis
JL Gevertz, I Kareva - npj Systems Biology and Applications, 2024 - nature.com
Mathematical models are increasingly being developed and calibrated in tandem with data
collection, empowering scientists to intervene in real time based on quantitative model …
collection, empowering scientists to intervene in real time based on quantitative model …
A confidence building exercise in data and identifiability: Modeling cancer chemotherapy as a case study
MC Eisenberg, HV Jain - Journal of theoretical biology, 2017 - Elsevier
Mathematical modeling has a long history in the field of cancer therapeutics, and there is
increasing recognition that it can help uncover the mechanisms that underlie tumor …
increasing recognition that it can help uncover the mechanisms that underlie tumor …
In silico models of cancer
Cancer is a complex disease that involves multiple types of biological interactions across
diverse physical, temporal, and biological scales. This complexity presents substantial …
diverse physical, temporal, and biological scales. This complexity presents substantial …
Interpretable machine learning for perturbation biology
Systematic perturbation of cells followed by comprehensive measurements of molecular and
phenotypic responses provides an informative data resource for constructing computational …
phenotypic responses provides an informative data resource for constructing computational …
[HTML][HTML] A semantics, energy-based approach to automate biomodel composition
Hierarchical modelling is essential to achieving complex, large-scale models. However, not
all modelling schemes support hierarchical composition, and correctly mapping points of …
all modelling schemes support hierarchical composition, and correctly mapping points of …
[HTML][HTML] Improved patient-specific calibration for agent-based cancer modeling
AZ Hyun, P Macklin - Journal of theoretical biology, 2013 - ncbi.nlm.nih.gov
Macklin et al.,(2012) recently introduced a mechanistic agent-based cell model, with
application to ductal carcinoma in situ (DCIS)—a precursor to invasive breast cancer. The …
application to ductal carcinoma in situ (DCIS)—a precursor to invasive breast cancer. The …
A perspective on bridging scales and design of models using low-dimensional manifolds and data-driven model inference
Systems in nature capable of collective behaviour are nonlinear, operating across several
scales. Yet our ability to account for their collective dynamics differs in physics, chemistry …
scales. Yet our ability to account for their collective dynamics differs in physics, chemistry …
Data-driven modelling of biological multi-scale processes
J Hasenauer, N Jagiella, S Hross… - Journal of Coupled …, 2015 - ingentaconnect.com
Biological processes involve a variety of spatial and temporal scales. A holistic
understanding of many biological processes therefore requires multi-scale models which …
understanding of many biological processes therefore requires multi-scale models which …
Evolutionary approach to model calibration with uncertainty: an application to breast cancer growth model
Dynamical systems in most scientific areas can be modelled using ordinary differential
equations or difference equations. However, when analysing and simulating real-world …
equations or difference equations. However, when analysing and simulating real-world …
A profile likelihood-based workflow for identifiability analysis, estimation, and prediction with mechanistic mathematical models
MJ Simpson, OJ Maclaren - bioRxiv, 2022 - biorxiv.org
Interpreting data using mechanistic mathematical models provides a foundation for
discovery and decision-making in all areas of science and engineering. Key steps in using …
discovery and decision-making in all areas of science and engineering. Key steps in using …