Improving the phenotype predictions of a yeast genome‐scale metabolic model by incorporating enzymatic constraints
Sánchez, Benjamín J, Zhang, Cheng, Nilsson, Avlant, Lahtvee, Petri‐Jaan, Kerkhoven, Eduard J, Nielsen, Jens
Published in Molecular systems biology (01.08.2017)
Published in Molecular systems biology (01.08.2017)
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Journal Article
RAVEN 2.0: A versatile toolbox for metabolic network reconstruction and a case study on Streptomyces coelicolor
Wang, Hao, Marcišauskas, Simonas, Sánchez, Benjamín J, Domenzain, Iván, Hermansson, Daniel, Agren, Rasmus, Nielsen, Jens, Kerkhoven, Eduard J
Published in PLoS computational biology (01.10.2018)
Published in PLoS computational biology (01.10.2018)
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Journal Article
Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism
Zhang, Jie, Petersen, Søren D, Radivojevic, Tijana, Ramirez, Andrés, Pérez-Manríquez, Andrés, Abeliuk, Eduardo, Sánchez, Benjamín J, Costello, Zak, Chen, Yu, Fero, Michael J, Martin, Hector Garcia, Nielsen, Jens, Keasling, Jay D, Jensen, Michael K
Published in Nature communications (25.09.2020)
Published in Nature communications (25.09.2020)
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Journal Article
Genome-scale modeling drives 70-fold improvement of intracellular heme production in Saccharomyces cerevisiae
Ishchuk, Olena P., Domenzain, Iván, Sánchez, Benjamín J., Muñiz-Paredes, Facundo, Martínez, José L., Nielsen, Jens, Petranovic, Dina
Published in Proceedings of the National Academy of Sciences - PNAS (26.07.2022)
Published in Proceedings of the National Academy of Sciences - PNAS (26.07.2022)
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Journal Article
Absolute Quantification of Protein and mRNA Abundances Demonstrate Variability in Gene-Specific Translation Efficiency in Yeast
Lahtvee, Petri-Jaan, Sánchez, Benjamín J., Smialowska, Agata, Kasvandik, Sergo, Elsemman, Ibrahim E., Gatto, Francesco, Nielsen, Jens
Published in Cell systems (24.05.2017)
Published in Cell systems (24.05.2017)
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Journal Article
CRI-SPA: a high-throughput method for systematic genetic editing of yeast libraries
Cachera, Paul, Olsson, Helén, Coumou, Hilde, Jensen, Mads L, Sánchez, Benjamín J, Strucko, Tomas, van den Broek, Marcel, Daran, Jean-Marc, Jensen, Michael K, Sonnenschein, Nikolaus, Lisby, Michael, Mortensen, Uffe H
Published in Nucleic acids research (22.09.2023)
Published in Nucleic acids research (22.09.2023)
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Journal Article
Genome-scale metabolic modeling of P. thermoglucosidasius NCIMB 11955 reveals metabolic bottlenecks in anaerobic metabolism
Mol, Viviënne, Bennett, Martyn, Sánchez, Benjamín J., Lisowska, Beata K., Herrgård, Markus J., Nielsen, Alex Toftgaard, Leak, David J., Sonnenschein, Nikolaus
Published in Metabolic engineering (01.05.2021)
Published in Metabolic engineering (01.05.2021)
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Journal Article
Benchmarking accuracy and precision of intensity‐based absolute quantification of protein abundances in Saccharomyces cerevisiae
Sánchez, Benjamín J., Lahtvee, Petri‐Jaan, Campbell, Kate, Kasvandik, Sergo, Yu, Rosemary, Domenzain, Iván, Zelezniak, Aleksej, Nielsen, Jens
Published in Proteomics (Weinheim) (01.03.2021)
Published in Proteomics (Weinheim) (01.03.2021)
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Journal Article
Benchmarking accuracy and precision of intensity‐based absolute quantification of protein abundances in Saccharomyces cerevisiae
Sánchez, Benjamín J., Lahtvee, Petri‐Jaan, Campbell, Kate, Kasvandik, Sergo, Yu, Rosemary, Domenzain, Iván, Zelezniak, Aleksej, Nielsen, Jens
Published in Proteomics (Weinheim) (01.08.2021)
Published in Proteomics (Weinheim) (01.08.2021)
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Journal Article
Author Correction: A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism
Lu, Hongzhong, Li, Feiran, Sánchez, Benjamín J., Zhu, Zhengming, Li, Gang, Domenzain, Iván, Marcišauskas, Simonas, Anton, Petre Mihail, Lappa, Dimitra, Lieven, Christian, Beber, Moritz Emanuel, Sonnenschein, Nikolaus, Kerkhoven, Eduard J., Nielsen, Jens
Published in Nature communications (22.10.2020)
Published in Nature communications (22.10.2020)
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Journal Article
HIPPO: An Iterative Reparametrization Method for Identification and Calibration of Dynamic Bioreactor Models of Complex Processes
Sánchez, Benjamín J, Soto, Daniela C, Jorquera, Héctor, Gelmi, Claudio A, Pérez-Correa, José R
Published in Industrial & engineering chemistry research (03.12.2014)
Published in Industrial & engineering chemistry research (03.12.2014)
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Journal Article
Yeast9: a consensus genome-scale metabolic model for S. cerevisiae curated by the community
Zhang, Chengyu, Sánchez, Benjamín J, Li, Feiran, Eiden, Cheng Wei Quan, Scott, William T, Liebal, Ulf W, Blank, Lars M, Mengers, Hendrik G, Anton, Mihail, Rangel, Albert Tafur, Mendoza, Sebastián N, Zhang, Lixin, Nielsen, Jens, Lu, Hongzhong, Kerkhoven, Eduard J
Published in Molecular systems biology (12.08.2024)
Published in Molecular systems biology (12.08.2024)
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Journal Article
Emergence of Phenotypically Distinct Subpopulations Is a Factor in Adaptation of Recombinant Saccharomyces cerevisiae under Glucose-Limited Conditions
Wright, Naia Risager, Jessop-Fabre, Mathew M, Sánchez, Benjamin J, Wulff, Tune, Workman, Christopher T, Rønnest, Nanna Petersen, Sonnenschein, Nikolaus
Published in Applied and environmental microbiology (12.04.2022)
Published in Applied and environmental microbiology (12.04.2022)
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