Mathematical modeling of proteome constraints within metabolism

• Genome-scale metabolic models (GEMs) are widely used to predict phenotypes with the aid of constraint-based modeling. In order to improve the predictive power of these models, there have been many efforts on imposing biological constraints, among which proteome constraints are of particular interest. Here we describe the concept of proteome constraints and review proteome-constrained GEMs, as well as their advantages and applications. In addition, we discuss a key issue in the field, i.e., low coverage of enzyme-specific turnover rates, and subsequently provide a few solutions to solve it. We end with a discussion on the trade-off between model complexity and capability.

Ämnesord

NATURVETENSKAP  -- Data- och informationsvetenskap -- Bioinformatik (hsv//swe)

NATURAL SCIENCES  -- Computer and Information Sciences -- Bioinformatics (hsv//eng)

NATURVETENSKAP  -- Matematik -- Sannolikhetsteori och statistik (hsv//swe)

NATURAL SCIENCES  -- Mathematics -- Probability Theory and Statistics (hsv//eng)

TEKNIK OCH TEKNOLOGIER  -- Elektroteknik och elektronik -- Reglerteknik (hsv//swe)

ENGINEERING AND TECHNOLOGY  -- Electrical Engineering, Electronic Engineering, Information Engineering -- Control Engineering (hsv//eng)

Nyckelord

Turnover rate

Constraint-based model

Genome-scale metabolic model

k cat

Proteome constraint

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