Modular parameter identification of biomolecular networks

DOI10.1137/15M103306XMaRDI QIDQ2833533zbMATH OpenFDO

Authors Moritz Lang, Jörg Stelling

Publication date 18 November 2016

Published in SIAM Journal on Scientific Computing (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1137/15M103306X

zbMATH Keywords

parameter identificationmodularizationsystems biology

Mathematics Subject Classification ID

Nonlinear programming (90C30) Systems biology, networks (92C42) Inverse problems involving ordinary differential equations (34A55)

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Cites work

• scientific article; zbMATH DE number 2084318 (Why is no real title available?)
• scientific article; zbMATH DE number 3126094 (Why is no real title available?)
• scientific article; zbMATH DE number 4009690 (Why is no real title available?)
• A Reflective Newton Method for Minimizing a Quadratic Function Subject to Bounds on Some of the Variables
• A distribution-matching method for parameter estimation and model selection in computational biology
• A probabilistic algorithm to test local algebraic observability in polynomial time
• A stochastic method for global optimization
• Bayesian stopping rules for multistart global optimization methods
• Component-based construction of bio-pathway models: the parameter estimation problem
• Global optimization by multilevel coordinate search
• Monotone Piecewise Cubic Interpolation
• Random linkage: A family of acceptance/rejection algorithms for global sation
• Recent developments and trends in global optimization

Cited in

(4)

• A Boolean approach for disentangling the roles of submodules to the global properties of a biomodel
• Parameter reconstruction for biochemical networks using interval analysis
• Setting parameters for biological models with ANIMO
• Identification of biological regulatory networks from process hitting models

Describes a project that uses

Uses Software

• ObservabilityTest
• MCS
• pchip
• Graphviz

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