Thesis

2025

Theses

Investigation of the Polyhydroxybutyrate Cycle Regulation and the Redox Homeostasis in Rhodospirillum rubrum during Dark Chemoheterotrophic Growth

H. A. D. Fleuriot – Blitman / V. Hatzimanikatis; M. Zinn (Dir.)  

Lausanne, EPFL, 2025. 

2024

Theses

Optimality principles for the analysis of biological processes across scales: From enzyme kinetics to microbiome dynamics

A. Sahin / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2024. 

Neuroprotection in the Retina: From Preventing Inflammatory Cell Death to Promoting Vascular Stability in the Central Nervous System

B. Kim / V. Hatzimanikatis; P. D. Westenskow (Dir.)  

Lausanne, EPFL, 2024. 

Development of Machine Learning methods for the kinetic modelling of metabolic networks for biotechnological and biomedical applications

S. Choudhury / V. Hatzimanikatis; L. Miskovic (Dir.)  

Lausanne, EPFL, 2024. 

Reconstruction and analysis of genome-scale metabolic networks in single organisms and microbial communities

E. Vagena / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2024. 

2023

Theses

Expanding computational biochemistry towards complex and non-natural compounds

A. Sveshnikova / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2023. 

Modeling, analysis, and design of complex biological networks

M. O. Oftadeh / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2023. 

2021

Theses

Modelling the Intracellular Environment under Uncertainty, from Post-translational Modification to Metabolic Networks

R. A. Denhardt-Eriksson / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2021. 

An optimized high throughput platform, from genetic transformation to fermentation, to screen for secreted laccases in Aspergillus niger

L. M. C. Leynaud-Kieffer Curran / V. Hatzimanikatis; B. Simmons (Dir.)  

Lausanne, EPFL, 2021. 

New and improved methods for integrated models of metabolism and gene expression

P. G. R. Salvy / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2021. 

2020

Theses

Optimization methods and objective functions for analysis of metabolic network models

Z. Hosseini / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2020. 

Modeling, predicting and mining metabolism at atom-level resolution

J. M. Hafner / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2020. 

Algorithms and flowchart for the design of synthetic biochemical networks

H. Mohammadi Peyhani / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2020. 

Modeling biochemical reaction networks in complex intracellular environments

D. R. Weilandt / V. Hatzimanikatis; B. Fierz (Dir.)  

Lausanne, EPFL, 2020. 

Mapping and Analysis of the Complexity of Lipid Metabolism for Applications in Health and Sustainability

S. Tsouka / V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2020.