Publications by Ljubisa Miskovic

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A benchmark problem for restricted complexity controller design is introduced. The objective is to design the lowest-order controller which meets the control specifications for an active suspension system. The input-output data of the plant are provided on the benchmark site and the final controllers are evaluated using the closed-loop data. Thirteen solutions proposed to solve the benchmark problem are briefly presented and classified in terms of methodology and compared with respect to their complexity an

Iterative tuning of the parameters of a restricted-order controller using the data acquired in closed-loop operation seems to be a promising idea, especially for tuning PID controllers in industrial applications. In this paper, a new tuning approach based on decorrelation is proposed. The basic idea is to make the output error between the designed and achieved closed-loop systems uncorrelated with the reference signal. The controller parameters are calculated as the solution to correlation equations involvi

Dataset needed to reproduce the results in the manuscript by "Generative Approaches to Kinetic Parameter Inference in Metabolic Networks via Latent Space Exploration" by S. Choudhury et al. (under review, a preprint available at https://www.biorxiv.org/con ...

The advancements in genome editing techniques over the past years have rekindled interest in rational metabolic engineering strategies. While Metabolic Control Analysis (MCA) is a well-established method for quantifying the effects of metabolic engineering ...

This paper examines the identification of a single-output two-input system. Motivated by an experiment design problem(should one excite the two inputs simultaneously or separately), we examine the effect of the (second) input signal on the variance of the ...

A correlation-based controller tuning method is proposed for the \Design and optimization of restricted-complexity controllers" benchmark problem. The approach originally proposed for model following is applied to solve the disturbance rejection problem. The idea is to tune the controller parameters such that the closed-loop output be uncorrelated with the measured disturbance. Since perfect decorrelation between the closed-loop output and the disturbance is not attainable with a restricted-complexity contr

The use of kinetic models of metabolism in design-build-learn-test cycles is limited despite their potential to guide and accelerate the optimization of cell factories. This is primarily due to difficulties in constructing kinetic models capable of capturing the complexities of the fermentation conditions. Building on recent advances in kinetic-model-based strain design, we present the rational metabolic engineering of an S. cerevisiae strain designed to overproduce p-coumaric acid (p-CA), an aromatic amino

A class of modified state space self-tuning controllers of the minimum state error variance type was considered. A suitable chosen structure of the proposed controller allows the tracking of a time-varying reference input and makes it possible to apply this solution to nonlinear and non-stationary plants. The advantage in using the proposed algorithm for nonlinear system control is demonstrated through its application to aircraft control around a prespecified reference trajectory in the presence of characte

Dataset supporting the results presented in the paper entitled "Kinetic-model-guided engineering of multiple S. cerevisiae strains improves p-coumaric acid production" by Narayanan, Jiang & Wang et al (https://doi.org/10.1016/j.ymben.2025.06.008). Dataset ...

Eukaryotic organisms play an important role in industrial biotechnology, from the production of fuels and commodity chemicals to therapeutic proteins. To optimize these industrial systems, a mathematical approach can be used to integrate the description of ...

An analysis of the variance of the parameters of a multi-input plant estimated in closed-loop operation is performed. More specifically, the effect of the simultaneous excitation of an additional input on the variance of the estimated parameters is investi ...

Devising genetic interventions for desired cellular phenotypes remains challenging regarding time and resources. Kinetic models can accelerate this task by simulating metabolic responses to genetic perturbations. However, exhaustive design evaluations with ...

The data and scripts used to produce, analyze, and visualize the results of the manuscript Enzyme promiscuous profiles for protein sequence and reaction annotation by Homa MohammadiPeyhani, Anastasia Sveshnikova, Ljubisa Miskovic, and Vassily Hatzimanikati ...

The iterative data-driven method labelled Correlation-based Tuning (CbT) is considered in this paper for the tuning of linear time-invariant multivariable controllers. The approach allows one to tune some elements of the controller transfer function matrix ...

The control system of the ESO 100 m telescope (OWL) has to reject slow and fast perturbations in several subsystems. In this paper we focus on the wind rejection control strategies for two subsystems: the main axes and the segmented mirror. It is shown tha ...

An iterative data-driven correlation-based method has been proposed recently to tune multivariable linear time-invariant controllers in closed-loop operation. In this contribution, the preferred way of exciting a 2 × 2 system is investigated via the accura ...

Supplementary files containing datasets needed to reproduce the results of the manuscript "Generative machine learning produces kinetic models that accurately characterize intracellular metabolic states" by S. Choudhury et al (https://doi.org/10.1101/2023. ...

The overarching ambition of kinetic metabolic modeling is to capture the dynamic behavior of metabolism to such an extent that systems and synthetic biology strategies can reliably be tested in silico. The lack of kinetic data hampers the development of ki ...

A variance analysis of the parameters of a plant, belonging to a class of multivariable systems, estimated in closed-loop operation is performed. More specifically, having in mind the control applications where it is not desirable to excite all external re ...

This paper examines the identification of multi-input systems. Motivated by an experiment design problem (should one excite the various inputs simultaneously or separately), we examine the effect of an additional input on the variance of the estimated coef ...

Ljubisa Miskovic

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Control of an Active Suspension System as a Benchmark for Design and Optimization of Restricted Complexity Controllers

Iterative Correlation-Based Controller Tuning: Application to a Magnetic Suspension System

Dataset - Generative Approaches to Kinetic Parameter Inference in Metabolic Networks via Latent Space Exploration

Constraint-based metabolic control analysis for rational strain engineering

Identification of a Two-Input System: Variance Analysis

Correlation-Based Tuning of a Restricted-Complexity Controller for an Active Suspension System

Kinetic-model-guided engineering of multiple S. cerevisiae strains improves p-coumaric acid production

Application of the minimum state error variance approach to nonlinear system control

Dataset - Kinetic-model-guided engineering of multiple S. cerevisiae strains improves p-coumaric acid production

A genome-scale metabolic model of Saccharomyces cerevisiae that integrates expression constraints and reaction thermodynamics

Direct Closed-Loop Identification of Multi-Input Systems: Variance Analysis

Rational strain design with minimal phenotype perturbation

Supplementary dataset for Enzyme promiscuous profiles for protein sequence and reaction annotation

Correlation-Based Tuning of Decoupling Multivariable Controllers

Perturbation rejection control strategy for OWL

On the Input Design for Data-Driven Correlation-Based Tuning of Multivariable Controllers

Supplementary datasets for the manuscript "Generative machine learning produces kinetic models that accurately characterize intracellular metabolic states" - Part 3

Rites of passage: requirements and standards for building kinetic models of metabolic phenotypes

Closed-loop Identification of Multivariable Systems: With or Without Excitation of All References?

Identification of multi-input systems: variance analysis and input design issues