Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Pharmacodynamic Models: Link Model and Systems Pharmacodynamic Model01:14

Pharmacodynamic Models: Link Model and Systems Pharmacodynamic Model

67
The link model is a fundamental pharmacokinetic-pharmacodynamic (PK–PD) approach to account for delayed drug responses when the observed effect does not immediately correlate with the drug's plasma concentration peak. This delay is mathematically addressed by introducing an effect compartment concentration, Ce, which is kinetically linked to the plasma concentration, Cp, via a first-order rate constant, ke0. The linkage allows for a more accurate prediction of drug effects over time. A...
67
Mechanistic Models: Compartment Models in Individual and Population Analysis01:23

Mechanistic Models: Compartment Models in Individual and Population Analysis

316
Mechanistic models are utilized in individual analysis using single-source data, but imperfections arise due to data collection errors, preventing perfect prediction of observed data. The mathematical equation involves known values (Xi), observed concentrations (Ci), measurement errors (εi), model parameters (ϕj), and the related function (ƒi) for i number of values. Different least-squares metrics quantify differences between predicted and observed values. The ordinary least...
316
Mechanistic Models: Overview of Compartment Models01:21

Mechanistic Models: Overview of Compartment Models

457
Mechanistic models, a category encompassing both physiological and compartmental modeling, differ from empirical models' approaches to incorporating known factors about the systems being modeled. Empirical models describe data with minimal assumptions, while mechanistic models aim to provide a robust description of available data by specifying assumptions and integrating known factors about the system. Compartmental analysis is a key example of a mechanistic model in pharmacokinetics and...
457
Classification of Systems-I01:26

Classification of Systems-I

649
Linearity is a system property characterized by a direct input-output relationship, combining homogeneity and additivity.
Homogeneity dictates that if an input x(t) is multiplied by a constant c, the output y(t) is multiplied by the same constant. Mathematically, this is expressed as:
649
Classification of Systems-II01:31

Classification of Systems-II

544
Continuous-time systems have continuous input and output signals, with time measured continuously. These systems are generally defined by differential or algebraic equations. For instance, in an RC circuit, the relationship between input and output voltage is expressed through a differential equation derived from Ohm's law and the capacitor relation,
544
Modeling with Differential Equations01:25

Modeling with Differential Equations

141
Population dynamics can be described mathematically by considering the population size P(t) as a function of time. The rate of change of the population is then represented by the derivative of P(t). A simple assumption is that the rate of growth is proportional to the size of the population itself. This leads to an exponential growth model, where the population increases rapidly without bound. While this is a useful first approximation, it does not reflect realistic long-term...
141

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Leveraging mathematical models to predict and control T-cell activation.

PLoS computational biology·2026
Same author

Prolyl hydroxylase-dependent proteolysis enables the orthogonal hypoxia responses in plants.

Nature communications·2026
Same author

A synthetic ERFVII-dependent circuit in yeast sheds light on the regulation of early hypoxic responses of plants.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

Analysing the Structural Identifiability and Observability of Mechanistic Models of Tumour Growth.

Bioengineering (Basel, Switzerland)·2025
Same author

Employing Observability Rank Conditions for Taking into Account Experimental Information a priori.

Bulletin of mathematical biology·2025
Same author

Corrigendum to "Controllability and accessibility analysis of nonlinear biosystems" [Computer Methods and Programs in Biomedicine 242 (2023) 107837].

Computer methods and programs in biomedicine·2024

Related Experiment Video

Updated: Mar 12, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

2.7K

Structural Identifiability of Dynamic Systems Biology Models.

Alejandro F Villaverde1,2, Antonio Barreiro2, Antonis Papachristodoulou1

  • 1Department of Engineering Science, University of Oxford, Oxford, United Kingdom.

Plos Computational Biology
|October 30, 2016
PubMed
Summary

Assessing structural identifiability of nonlinear models is crucial but computationally expensive. This study introduces STRIKE-GOLDD, a novel method extending observability analysis to efficiently determine model parameter identifiability, aiding systems biology research.

More Related Videos

Finite Element Modelling of a Cellular Electric Microenvironment
08:23

Finite Element Modelling of a Cellular Electric Microenvironment

Published on: May 18, 2021

4.1K
Author Spotlight: Developing a Unique Modular Microphysiological System to Mimic Human Barrier Tissue
06:20

Author Spotlight: Developing a Unique Modular Microphysiological System to Mimic Human Barrier Tissue

Published on: February 16, 2024

1.6K

Related Experiment Videos

Last Updated: Mar 12, 2026

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

2.7K
Finite Element Modelling of a Cellular Electric Microenvironment
08:23

Finite Element Modelling of a Cellular Electric Microenvironment

Published on: May 18, 2021

4.1K
Author Spotlight: Developing a Unique Modular Microphysiological System to Mimic Human Barrier Tissue
06:20

Author Spotlight: Developing a Unique Modular Microphysiological System to Mimic Human Barrier Tissue

Published on: February 16, 2024

1.6K

Area of Science:

  • Systems Biology
  • Mathematical Modeling
  • Computational Science

Background:

  • Nonlinear differential equation models are vital for understanding biological systems but often contain numerous unknown parameters.
  • Structural identifiability analysis, essential for parameter estimation, is frequently neglected due to high computational costs of symbolic calculations.
  • This analysis is a prerequisite for reliable model exploitation, experiment design, and parameter estimation.

Purpose of the Study:

  • To develop an efficient method for assessing the structural identifiability of a broad class of nonlinear models.
  • To overcome the computational limitations of traditional identifiability analysis techniques.
  • To provide a practical tool for improving the reliability of complex biological models.

Main Methods:

  • Extension of observability analysis methods using Lie derivatives and decomposition.
  • Development of the STRIKE-GOLDD (STRuctural Identifiability taKen as Extended-Generalized Observability with Lie Derivatives and Decomposition) procedure.
  • Implementation of the STRIKE-GOLDD method in an open-source MATLAB toolbox.

Main Results:

  • Successfully analyzed structural identifiability for models previously undetermined.
  • Identified previously unreported unidentifiabilities in complex models.
  • Demonstrated methods to modify unidentifiable models, rendering them identifiable.
  • The STRIKE-GOLDD method proved broadly applicable to complex systems biology models.

Conclusions:

  • The STRIKE-GOLDD method offers an efficient and broadly applicable solution for structural identifiability analysis in nonlinear models.
  • This approach mitigates issues arising from inadequate identifiability assessment, enhancing tasks like parameter estimation and model-based optimization.
  • The open-source MATLAB toolbox facilitates wider adoption and application in systems biology and related fields.