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Generative machine learning produces kinetic models that accurately characterize intracellular metabolic states
Author / Creator:Choudhury, Subham ; Narayanan, Bharath ; Moret, Michael ; Hatzimanikatis, Vassily ; Miskovic, Ljubisa
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2023-02
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Rational strain design with minimal phenotype perturbation
Author / Creator:Narayanan, Bharath ; Weilandt, Daniel Robert ; Masid, Maria ; Miskovic, Ljubisa ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2022-11
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Large-scale kinetic metabolic models of Pseudomonas putida for a consistent design of metabolic engineering strategies
Author / Creator:Tokic, Milenko ; Miskovic, Ljubisa ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2019-03
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Constraint-based metabolic control analysis for rational strain engineering
Author / Creator:Tsouka, Sophia ; Ataman, Meric ; Hameri, Tuure ; Miskovic, Ljubisa ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2020-11
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Reconstructing Kinetic Models for Dynamical Studies of Metabolism using Generative Adversarial Networks
Author / Creator:Choudhury, Subham ; Moret, Michael ; Salvy, Pierre ; Weilandt, Daniel ; Hatzimanikatis, Vassily ; Miskovic, Ljubisa
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2022-02
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Uncertainty Reduction in Biochemical Kinetic Models: Enforcing Desired Model Properties
Author / Creator:Miskovic, Ljubisa ; Beal, Jonas ; Moret, Michael ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2019-07
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Control Theory Concepts for Modeling Uncertainty in Enzyme Kinetics of Biochemical Networks
Author / Creator:Miskovic, Ljubisa ; Tokic, Milenko ; Savoglidis, Georgios ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2019-04
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A genome-scale metabolic model of Saccharomyces cerevisiae that integrates expression constraints and reaction thermodynamics
Author / Creator:Oftadeh, Omid ; Salvy, Pierre ; Masid, Maria ; Curvat, Maxime ; Miskovic, Ljubisa ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2021-02
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Kinetic models of metabolism that consider alternative steady-state solutions of intracellular fluxes and concentrations
Author / Creator:Hameri, Tuure ; Fengos, Georgios ; Ataman, Meric ; Miskovic, Ljubisa ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2018-10
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Assigning enzyme sequences to orphan and novel reactions using knowledge of substrate reactive sites
Author / Creator:Hadadi, Noushin ; Mohamadipeyhani, Homa ; Miskovic, Ljubisa ; Seijo, Marianne ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2018-06
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ArticlesPeer ReviewedFull Text
Closed-Loop Identification of MIMO Systems: A New Look at Identifiability and Experiment Design. Discussion
Author / Creator:BAZANELLA, Alexandre Sanfelice ; GEVERS, Michel ; MISKOVIC, Ljubiša ; JIN WANG
Publisher:Cachan: Lavoisier
Journal title:European journal of control, 2010, Vol.16 (3), p.228-241
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Discovery and Evaluation of Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors
Author / Creator:Tokic, Milenko ; Hadadi, Noushin ; Ataman, Meric ; Neves, Dario S ; Ebert, Birgitta E ; Blank, Lars M ; Miskovic, Ljubisa ; Hatzimanikatis, Vassily
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2018-06
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ArticlesPeer ReviewedFull Text
Thanks to our reviewers, The Plant Genome, 2020
Publisher:United States: John Wiley & Sons, Inc
Journal title:The plant genome, 2021-07, Vol.14 (2), p.e20108-n/a
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ArticlesPeer ReviewedFull Text
Thanks to Our Reviewers, The Plant Genome, 2019
Publisher:Madison: John Wiley & Sons, Inc
Journal title:The plant genome, 2020-03, Vol.13 (1), p.n/a
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Generative machine learning produces kinetic models that accurately characterize intracellular metabolic states

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Rational strain design with minimal phenotype perturbation

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Large-scale kinetic metabolic models of Pseudomonas putida for a consistent design of metabolic engineering strategies

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Constraint-based metabolic control analysis for rational strain engineering

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Reconstructing Kinetic Models for Dynamical Studies of Metabolism using Generative Adversarial Networks

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Uncertainty Reduction in Biochemical Kinetic Models: Enforcing Desired Model Properties

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Control Theory Concepts for Modeling Uncertainty in Enzyme Kinetics of Biochemical Networks

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

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Kinetic models of metabolism that consider alternative steady-state solutions of intracellular fluxes and concentrations

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Assigning enzyme sequences to orphan and novel reactions using knowledge of substrate reactive sites

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Closed-Loop Identification of MIMO Systems: A New Look at Identifiability and Experiment Design. Discussion

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Discovery and Evaluation of Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors

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Thanks to our reviewers, The Plant Genome, 2020

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Thanks to Our Reviewers, The Plant Genome, 2019

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