CRI-SPA: a high-throughput method for systematic genetic editing of yeast libraries
A highly efficient, reproducible and scalable genome editing method
From genotype to phenotype: computational approaches for inferring microbial traits relevant to the food industry
A review of knowledge and data-driven computational approaches used in biotech
Genome-scale modeling drives 70-fold improvement of intracellular heme production in Saccharomyces cerevisiae
Using computational simulations to find the best way to produce the heme cofactor
Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0
Streamlining generation of enzyme-constrained models using GECKO
Proteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation
A quantitative multi-omic dataset of S. cerevisiae at increasing growth rates
Emergence of Phenotypically Distinct Subpopulations Is a Factor in Adaptation of Recombinant Saccharomyces cerevisiae under Glucose-Limited Conditions
Studying subpopulations of a S. cerevisiae strain with single-cell level technology
DebaryOmics: an integrative –omics study to understand the halophilic behaviour of Debaryomyces hansenii
Transcriptomics and phosphoproteomic response of D. hansenii to increased salt levels
Genome-scale metabolic modeling of P. thermoglucosidasius NCIMB 11955 reveals metabolic bottlenecks in anaerobic metabolism
p-thermo: Development of a genome-scale model of P. thermoglucosidasius
Benchmarking accuracy and precision of intensity-based absolute quantification of protein abundances in Saccharomyces cerevisiae
How reproducible is the absolute quantification of protein levels?
Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism
Over-producing tryptophan using a combination of machine learning and flux balance analysis
MEMOTE for standardized genome-scale metabolic model testing
A community tool for evaluating quality of metabolic models
Model-Assisted Fine-Tuning of Central Carbon Metabolism in Yeast through dCas9-Based Regulation
Over-producing acetyl/malonyl-CoA using in silico & experimental methods
A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism
The consensus metabolic model of yeast as a standard in the community
SLIMEr: probing flexibility of lipid metabolism in yeast with an improved constraint-based modeling framework
A genome-scale method for simulating energy costs of lipid metabolism
RAVEN 2.0: A versatile toolbox for metabolic network reconstruction and a case study on Streptomyces coelicolor
A Matlab toolbox for metabolic network reconstruction
Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints
A computational framework for connecting metabolism and enzyme levels
Absolute Quantification of Protein and mRNA Abundances Demonstrate Variability in Gene-Specific Translation Efficiency in Yeast
An integrative study of yeast’s response to stress from an omics perspective.
Genome scale models of yeast: towards standardized evaluation and consistent omic integration
A review on genome-scale modeling of S. cerevisiae
HIPPO: An Iterative Reparametrization Method for Identification and Calibration of Dynamic Bioreactor Models of Complex Processes
A method for evaluating kinetic parameters in bioreactor models.
Construction of robust dynamic genome-scale metabolic model structures of Saccharomyces cerevisiae through iterative re-parameterization
An algorithm for improving dFBA predictions and its implementation in yeast.
