Yu Chen

Visar 30 publikationer

2024

Increased CO<inf>2</inf> fixation enables high carbon-yield production of 3-hydroxypropionic acid in yeast

Ning Qin, Lingyun Li, Xiaozhen Wan et al
Nature Communications. Vol. 15 (1)
Artikel i vetenskaplig tidskrift
2024

Relieving metabolic burden to improve robustness and bioproduction by industrial microorganisms

Jiwei Mao, Hongyu Zhang, Yu Chen et al
Biotechnology Advances. Vol. 74
Reviewartikel
2024

Single-cell omics analysis with genome-scale metabolic modeling

Yu Chen, Johan Gustafsson, Jingyu Yang et al
Current Opinion in Biotechnology. Vol. 86
Reviewartikel
2024

Reconstruction, simulation and analysis of enzyme-constrained metabolic models using GECKO Toolbox 3.0

Yu Chen, Johan Gustafsson, Albert Tafur Rangel et al
Nature Protocols. Vol. 19 (3), p. 629-667
Artikel i vetenskaplig tidskrift
2023

Engineering yeast mitochondrial metabolism for 3-hydroxypropionate production

Yiming Zhang, Mo Su, Yu Chen et al
Biotechnology for Biofuels and Bioproducts. Vol. 16 (1)
Artikel i vetenskaplig tidskrift
2023

Genome-scale metabolic models applied for human health and biopharmaceutical engineering

Feiran Li, Yu Chen, Johan Gustafsson et al
Quantitative Biology. Vol. 11 (4), p. 363-375
Reviewartikel
2023

Flux regulation through glycolysis and respiration is balanced by inositol pyrophosphates in yeast

Ning Qin, Lingyun Li, Xu Ji et al
Cell. Vol. 186 (4), p. 748-763.e15
Artikel i vetenskaplig tidskrift
2023

Engineering yeast for high-level production of diterpenoid sclareol

Xuan Cao, Wei Yu, Yu Chen et al
Metabolic Engineering. Vol. 75, p. 19-28
Artikel i vetenskaplig tidskrift
2023

GotEnzymes: an extensive database of enzyme parameter predictions

Feiran Li, Yu Chen, Petre Mihail Anton et al
Nucleic Acids Research. Vol. 51 (D1), p. D583-D586
Artikel i vetenskaplig tidskrift
2022

Deep learning-based k(cat) prediction enables improved enzyme-constrained model reconstruction

Feiran Li, Le Yuan, Hongzhong Lu et al
Nature Catalysis. Vol. 5 (8), p. 662-672
Artikel i vetenskaplig tidskrift
2022

Proteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation

Jianye Xia, Benjamín José Sánchez, Yu Chen et al
Nature Communications. Vol. 13 (1)
Artikel i vetenskaplig tidskrift
2022

Genome-scale modeling of yeast metabolism: retrospectives and perspectives

Yu Chen, Feiran Li, Jens B Nielsen
FEMS Yeast Research. Vol. 22 (1)
Reviewartikel
2022

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

Feiran Li, Yu Chen, Qi Qi et al
Nature Communications. Vol. 13 (1)
Artikel i vetenskaplig tidskrift
2022

Engineering cofactor supply and recycling to drive phenolic acid biosynthesis in yeast

Ruibing Chen, Jiaoqi Gao, Wei Yu et al
Nature Chemical Biology. Vol. 18 (5), p. 520-529
Artikel i vetenskaplig tidskrift
2022

Yeast has evolved to minimize protein resource cost for synthesizing amino acids

Yu Chen, Jens B Nielsen
Proceedings of the National Academy of Sciences of the United States of America. Vol. 119 (4)
Artikel i vetenskaplig tidskrift
2021

Proteome Constraints in Genome-Scale Models

Yu Chen, Jens B Nielsen, Eduard Kerkhoven
Metabolic Engineering: Concepts and Applications: Volume 13a and 13b. Vol. 13, p. 137-152
Kapitel i bok
2021

Engineering yeast metabolism for the discovery and production of polyamines and polyamine analogues

Jiufu Qin, Anastasia Krivoruchko, Boyang Ji et al
Nature Catalysis. Vol. 4 (6), p. 498-509
Artikel i vetenskaplig tidskrift
2021

In vitro turnover numbers do not reflect in vivo activities of yeast enzymes

Yu Chen, Jens B Nielsen
Proceedings of the National Academy of Sciences of the United States of America. Vol. 118 (32)
Artikel i vetenskaplig tidskrift
2021

Kinetic Models of Metabolism

Hongzhong Lu, Yu Chen, Jens B Nielsen et al
Metabolic Engineering: Concepts and Applications: Volume 13a and 13b. Vol. 13, p. 153-170
Kapitel i bok
2021

Mathematical modeling of proteome constraints within metabolism

Yu Chen, Jens B Nielsen
Current Opinion in Systems Biology. Vol. 25, p. 50-56
Reviewartikel
2021

Yeast optimizes metal utilization based on metabolic network and enzyme kinetics

Yu Chen, Feiran Li, Jiwei Mao et al
Proceedings of the National Academy of Sciences of the United States of America. Vol. 118 (12)
Artikel i vetenskaplig tidskrift
2021

Proteome constraints reveal targets for improving microbial fitness in nutrient-rich environments

Yu Chen, Eunice van Pelt-KleinJan, Berdien van Olst et al
Molecular Systems Biology. Vol. 17 (4)
Artikel i vetenskaplig tidskrift
2021

Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection

Hongzhong Lu, Feiran Li, Le Yuan et al
Molecular Systems Biology. Vol. 17 (10)
Artikel i vetenskaplig tidskrift
2020

Genome-scale modeling for Bacillus coagulans to understand the metabolic characteristics

Yu Chen, Yan Sun, Zhihao Liu et al
Biotechnology and Bioengineering. Vol. 117 (11), p. 3545-3558
Artikel i vetenskaplig tidskrift
2020

Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism

J. Zhang, Søren D. Petersen, Tijana Radivojevic et al
Nature Communications. Vol. 11 (1)
Artikel i vetenskaplig tidskrift
2019

Genome-Scale Metabolic Modeling from Yeast to Human Cell Models of Complex Diseases: Latest Advances and Challenges

Yu Chen, Gang Li, Jens B Nielsen
Methods in Molecular Biology. Vol. 2049, p. 329-345
Kapitel i bok
2019

Energy metabolism controls phenotypes by protein efficiency and allocation

Yu Chen, Jens B Nielsen
Proceedings of the National Academy of Sciences of the United States of America. Vol. 116 (35), p. 17592-17597
Artikel i vetenskaplig tidskrift
2019

Rewiring carbon metabolism in yeast for high level production of aromatic chemicals

Quanli Liu, Tao Yu, Xiaowei Li et al
Nature Communications. Vol. 10 (1)
Artikel i vetenskaplig tidskrift
2017

Systematic inference of functional phosphorylation events in yeast metabolism

Yu Chen, Y. H. Wang, Jens B Nielsen
Bioinformatics. Vol. 33 (13), p. 1995-2001
Artikel i vetenskaplig tidskrift
2016

Flux control through protein phosphorylation in yeast

Yu Chen, Jens B Nielsen
FEMS Yeast Research. Vol. 16 (8)
Artikel i vetenskaplig tidskrift

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