Research Articles
Objective Function Selection for Biological Data Fitting: A Comprehensive Guide for Researchers and Drug Developers
Selecting appropriate objective functions is a critical yet challenging step in fitting mathematical models to biological data, directly impacting parameter estimation accuracy, model predictive power, and ultimately, scientific and clinical...
Multi-Start Nonlinear Least Squares: Implementation Strategies for Robust Drug Discovery
This article provides a comprehensive guide to multi-start nonlinear least squares (NLS) implementation, specifically tailored for researchers and professionals in drug development.
Regularization Techniques to Prevent Overfitting in Biomedical Research and Drug Discovery
This article provides a comprehensive guide to regularization techniques tailored for researchers, scientists, and professionals in drug development.
Markov Chain Monte Carlo Methods for Stochastic Models: A Comprehensive Guide for Biomedical Research
This article provides a comprehensive guide to Markov Chain Monte Carlo (MCMC) methods, tailored for researchers, scientists, and professionals in drug development.
Adjoint Sensitivity Analysis for Large Biological Models: Advanced Methods for Efficient Parameter Estimation and Uncertainty Quantification
This article provides a comprehensive guide to adjoint sensitivity analysis (ASA) for researchers, scientists, and drug development professionals working with large biological models.
Optimizing Signaling Pathway Analysis with Genetic Algorithms: From Foundational Concepts to Clinical Applications
This article provides a comprehensive exploration of genetic algorithms (GAs) applied to signaling pathway analysis in biomedical research.
A Comprehensive Guide to Model Calibration with PyBioNetFit: Leveraging Qualitative and Quantitative Data in Systems Biology
This article provides a detailed guide for researchers and scientists on using PyBioNetFit (PyBNF), a powerful software tool for parameterizing biological models.
Mastering Parameter Estimation in Systems Biology: A Comprehensive Guide to Data2Dynamics Software
This comprehensive guide explores parameter estimation and uncertainty quantification using Data2Dynamics (D2D), an open-source MATLAB toolbox specifically designed for dynamic modeling of biological systems.
Gradient-Based Optimization and Sensitivity Analysis: Accelerating Precision Drug Discovery
This article provides a comprehensive exploration of gradient-based optimization and sensitivity analysis, powerful computational techniques that are revolutionizing drug discovery.
Implementing Differential Evolution for ODE Parameter Estimation in Biomedical Research
Estimating parameters for dynamic models described by Ordinary Differential Equations (ODEs) is a critical yet challenging task in biomedical research, particularly in drug development and systems biology.