CLUE

CLUE performs exact maximal reduction of kinetic models using constrained linear lumping to compute minimal-dimensional linear mappings that preserve the dynamics of specified linear combinations of variables in systems of polynomial ordinary differential equations.

Key Features:

• Exact Model Reduction: Performs precise reduction on systems of polynomial differential equations via constrained linear lumping to compute a minimal-dimensional linear mapping of the state space.
• Preservation of Dynamics: Ensures the reduced model retains the dynamics of user-specified macro-variables or linear combinations of original variables.
• Linear Algebra Foundation: Leverages linear algebra techniques to derive linear mappings applicable to high-dimensional non-linear ODE systems.
• Biological Interpretability: Substantially lowers model dimensionality to facilitate extraction of biologically intelligible insights from complex biochemical systems.

Scientific Applications:

• Systems Biology Model Simplification: Reduces complexity of detailed mechanistic kinetic models used to describe biochemical networks and species configurations.
• Parameter Estimation and Analysis: Produces smaller, dynamically faithful models that support parameter estimation and dynamical analysis of biochemical systems.
• Large-Scale Kinetic Model Handling: Applies to high-dimensional kinetic models where tracking many configurations of species yields extensive ODE systems.

Methodology:

Constrained linear lumping of systems of polynomial ordinary differential equations to compute the smallest possible linear reduction that preserves dynamics of specified linear combinations of variables, implemented using linear algebra methods.