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Improving recombinant protein production by yeast through genome-scale modeling using proteome constraints

Nature communications, 2022-05, Vol.13 (1), p.2969-2969, Article 2969

2022

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Nitrogen as the major factor influencing gene expression in Yarrowia lipolytica

Biotechnology reports (Amsterdam, Netherlands), 2020-09, Vol.27, p.e00521-e00521, Article e00521

2020

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Advances in constraint-based models: methods for improved predictive power based on resource allocation constraints

Current opinion in microbiology, 2022-08, Vol.68, p.102168-102168, Article 102168

Kerkhoven, Eduard J

2022

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Investigating the Influence of Glycerol on the Utilization of Glucose in Yarrowia lipolytica Using RNA-Seq-Based Transcriptomics

G3 : genes - genomes - genetics, 2019-12, Vol.9 (12), p.4059-4071

2019

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Urea is a drop-in nitrogen source alternative to ammonium sulphate in Yarrowia lipolytica

iScience, 2022-12, Vol.25 (12), p.105703-105703, Article 105703

2022

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Rewiring Saccharomyces cerevisiae metabolism for optimised Taxol® precursors production

Metabolic engineering communications, 2024-06, Vol.18, p.e00229-e00229, Article e00229

2024

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Constraint-based modeling of yeast mitochondria reveals the dynamics of protein import and iron-sulfur cluster biogenesis

iScience, 2021-11, Vol.24 (11), p.103294-103294, Article 103294

2021

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Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production

iScience, 2020-09, Vol.23 (9), p.101525-101525, Article 101525

2020

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Editorial: Multi-Omics Technologies for Optimizing Synthetic Biomanufacturing

Frontiers in bioengineering and biotechnology, 2021-12, Vol.9, p.818010-818010

2021

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Single-cell omics analysis with genome-scale metabolic modeling

Current opinion in biotechnology, 2024-04, Vol.86, p.103078-103078, Article 103078

2024

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Barriers and opportunities in bio-based production of hydrocarbons

Nature energy, 2018-11, Vol.3 (11), p.925-935

2018

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Abolishing storage lipids induces protein misfolding and stress responses in Yarrowia lipolytica

Journal of industrial microbiology & biotechnology, 2023-02, Vol.50 (1)

2023

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Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica

mSphere, 2018-12, Vol.3 (6)

2018

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Engineering of Saccharomyces cerevisiae for enhanced metabolic robustness and L-lactic acid production from lignocellulosic biomass

Metabolic engineering, 2024-07, Vol.84, p.23-33

2024

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Advances in genome-scale metabolic models of industrially important fungi

Current opinion in biotechnology, 2023-12, Vol.84, p.103005-103005, Article 103005

2023

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Streptomyces castrisilvae sp. nov. and Streptomyces glycanivorans sp. nov., novel soil streptomycetes metabolizing mutan and alternan

International journal of systematic and evolutionary microbiology, 2024-09, Vol.74 (9)

2024

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HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer

Briefings in bioinformatics, 2023-03, Vol.24 (2)

2023

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Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica

NPJ systems biology and applications, 2016-01, Vol.2 (1), p.16005-16005, Article 16005

2016

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Yeast9: a consensus genome-scale metabolic model for S. cerevisiae curated by the community

Molecular systems biology, 2024-08, Vol.In Press

2024

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Evaluating accessibility, usability and interoperability of genome-scale metabolic models for diverse yeasts species

FEMS yeast research, 2021-02, Vol.21 (1), p.1

2021

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Genome scale metabolic modeling of the riboflavin overproducer Ashbya gossypii

Biotechnology and bioengineering, 2014-06, Vol.111 (6), p.1191-1199

2014

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Crystal Structure of an Arginase-like Protein from Trypanosoma brucei That Evolved without a Binuclear Manganese Cluster

Biochemistry (Easton), 2015-01, Vol.54 (2), p.458-471

2015

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Reprogramming Yarrowia lipolytica metabolism for efficient synthesis of itaconic acid from flask to semipilot scale

Science advances, 2024-08, Vol.10 (32), p.eadn0414

2024

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Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica

mBio, 2017-06, Vol.8 (3), p.Article no. e00857

2017

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Mapping the metabolism of five amino acids in bloodstream form Trypanosoma brucei using U-13C-labelled substrates and LC–MS

Bioscience reports, 2019-05, Vol.39 (5)

2019

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Improving recombinant protein production by yeast through genome-scale modeling using proteome constraints

Nitrogen as the major factor influencing gene expression in Yarrowia lipolytica

Advances in constraint-based models: methods for improved predictive power based on resource allocation constraints

Investigating the Influence of Glycerol on the Utilization of Glucose in Yarrowia lipolytica Using RNA-Seq-Based Transcriptomics

Urea is a drop-in nitrogen source alternative to ammonium sulphate in Yarrowia lipolytica

Rewiring Saccharomyces cerevisiae metabolism for optimised Taxol® precursors production

Constraint-based modeling of yeast mitochondria reveals the dynamics of protein import and iron-sulfur cluster biogenesis

Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production

Editorial: Multi-Omics Technologies for Optimizing Synthetic Biomanufacturing

Single-cell omics analysis with genome-scale metabolic modeling

Barriers and opportunities in bio-based production of hydrocarbons

Abolishing storage lipids induces protein misfolding and stress responses in Yarrowia lipolytica

Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica

Engineering of Saccharomyces cerevisiae for enhanced metabolic robustness and L-lactic acid production from lignocellulosic biomass

Advances in genome-scale metabolic models of industrially important fungi

Streptomyces castrisilvae sp. nov. and Streptomyces glycanivorans sp. nov., novel soil streptomycetes metabolizing mutan and alternan

HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer

Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica

Yeast9: a consensus genome-scale metabolic model for S. cerevisiae curated by the community

Evaluating accessibility, usability and interoperability of genome-scale metabolic models for diverse yeasts species

Genome scale metabolic modeling of the riboflavin overproducer Ashbya gossypii

Crystal Structure of an Arginase-like Protein from Trypanosoma brucei That Evolved without a Binuclear Manganese Cluster

Reprogramming Yarrowia lipolytica metabolism for efficient synthesis of itaconic acid from flask to semipilot scale

Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica

Mapping the metabolism of five amino acids in bloodstream form Trypanosoma brucei using U-13C-labelled substrates and LC–MS

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