Eduard Johannes Kerkhoven (Eduard J Kerkhoven)

Scopus Author ID ResearcherID Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 40

Top Topics

Network Analysis

Bacillus Subtilis

Saccharomyces Cerevisiae

Top Venues

Proceedings of the National Academy of Sciences of the United States of America

Nature communications

International journal of molecular sciences

Nature protocols

This page only lists publications with an associated author ORCID identifier.

Publications

Kameshwara V R Peri, Le Yuan, Fábio Faria Oliveira, Karl Persson, Hanna D Alalam, Lisbeth Olsson, Johan Larsbrink, Eduard Johannes Kerkhoven, Cecilia Geijer
A unique metabolic gene cluster regulates lactose and galactose metabolism in the yeast Candida intermedia . Applied and environmental microbiology (2024)
Jing Fu, Simone Zaghen, Hongzhong Lu, Oliver Konzock, Naghmeh Poorinmohammad, Alexander Kornberg, Rodrigo Ledesma-Amaro, Deni Koseto, Alexander Wentzel, Francesca Di Bartolomeo, Eduard Johannes Kerkhoven
Reprogramming Yarrowia lipolytica metabolism for efficient synthesis of itaconic acid from flask to semipilot scale. Science advances 10 (32) (2024)
Álvaro Pérez-Valero, Juan Serna-Diestro, Albert Tafur Rangel, Simona Barbuto Ferraiuolo, Chiara Schiraldi, Eduard Johannes Kerkhoven, Claudio J Villar, Felipe Lombó
Biosynthesis of Hesperetin, Homoeriodictyol, and Homohesperetin in a Transcriptomics-Driven Engineered Strain of Streptomyces albidoflavus . International journal of molecular sciences 25 (7) (2024)
Chengyu Zhang, Benjamín J Sánchez, Feiran Li, Cheng Wei Quan Eiden, William T Scott, Ulf W Liebal, Lars Mathias Blank, Hendrik G Mengers, Petre Mihail Anton, Albert Tafur Rangel, Sebastián N Mendoza, Lixin Zhang, Jens Nielsen, Hongzhong Lu, Eduard Johannes Kerkhoven
Yeast9: a consensus genome-scale metabolic model for S. cerevisiae curated by the community. Molecular systems biology (2024)
Álvaro Pérez-Valero, Juan Serna-Diestro, Albert Tafur Rangel, Simona Barbuto Ferraiuolo, Chiara Schiraldi, Eduard Johannes Kerkhoven, Claudio J Villar, Felipe Lombó
Biosynthesis of Hesperetin, Homoeriodictyol, and Homohesperetin in a Transcriptomics-Driven Engineered Strain of Streptomyces albidoflavus . International journal of molecular sciences 25 (7) (2024)
Yu Chen, Johan Gustafsson, Albert Tafur Rangel, Petre Mihail Anton, Iván Domenzain, Cheewin Kittikunapong, Feiran Li, Le Yuan, Jens Nielsen, Eduard Johannes Kerkhoven
Reconstruction, simulation and analysis of enzyme-constrained metabolic models using GECKO Toolbox 3.0. Nature protocols (2024)
Jing Fu, Simone Zaghen, Hongzhong Lu, Oliver Konzock, Naghmeh Poorinmohammad, Alexander Kornberg, Rodrigo Ledesma-Amaro, Deni Koseto, Alexander Wentzel, Francesca Di Bartolomeo, Eduard Johannes Kerkhoven
Reprogramming Yarrowia lipolytica metabolism for efficient synthesis of itaconic acid from flask to semipilot scale. Science advances 10 (32) (2024)
Yu Chen, Johan Gustafsson, Albert Tafur Rangel, Petre Mihail Anton, Iván Domenzain, Cheewin Kittikunapong, Feiran Li, Le Yuan, Jens Nielsen, Eduard Johannes Kerkhoven
Reconstruction, simulation and analysis of enzyme-constrained metabolic models using GECKO Toolbox 3.0. Nature protocols 19 (3) (2024)
Álvaro Pérez-Valero, Juan Serna-Diestro, Albert Tafur Rangel, Simona Barbuto Ferraiuolo, Chiara Schiraldi, Eduard Johannes Kerkhoven, Claudio J Villar, Felipe Lombó
Biosynthesis of Hesperetin, Homoeriodictyol, and Homohesperetin in a Transcriptomics-Driven Engineered Strain of Streptomyces albidoflavus . International journal of molecular sciences 25 (7) (2024)
Yu Chen, Johan Gustafsson, Albert Tafur Rangel, Petre Mihail Anton, Iván Domenzain, Cheewin Kittikunapong, Feiran Li, Le Yuan, Jens Nielsen, Eduard Johannes Kerkhoven
Reconstruction, simulation and analysis of enzyme-constrained metabolic models using GECKO Toolbox 3.0. Nature protocols 19 (3) (2024)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Le Yuan, Hongzhong Lu, Feiran Li, Jens Nielsen, Eduard Johannes Kerkhoven
HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer. Briefings in bioinformatics (2023)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Le Yuan, Hongzhong Lu, Feiran Li, Jens Nielsen, Eduard Johannes Kerkhoven
HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer. Briefings in bioinformatics 24 (2) (2023)
Le Yuan, Hongzhong Lu, Feiran Li, Jens Nielsen, Eduard Johannes Kerkhoven
HGTphyloDetect: facilitating the identification and phylogenetic analysis of horizontal gene transfer. Briefings in bioinformatics 24 (2) (2023)
Amanda Sörensen Ristinmaa, Albert Tafur Rangel, Alexander Idström, Sebastian Valenzuela, Eduard Johannes Kerkhoven, Phillip Byron Pope, Merima Hasani, Johan Larsbrink
Resin acids play key roles in shaping microbial communities during degradation of spruce bark. Nature communications 14 (1) (2023)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Johan Gustafsson, Petre Mihail Anton, Fariba Roshanzamir, Rebecka Jörnsten, Eduard Johannes Kerkhoven, Jonathan L Robinson, Jens B Nielsen
Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data. Proceedings of the National Academy of Sciences of the United States of America 120 (6) (2023)
Naghmeh Poorinmohammad, Jing Fu, Bob Wabeke, Eduard Johannes Kerkhoven
Validated Growth Rate-Dependent Regulation of Lipid Metabolism in Yarrowia lipolytica . International journal of molecular sciences 23 (15) (2022)
Hongzhong Lu, Feiran Li, Le Yuan, Iván Domenzain, Rosemary Yu, Hao Wang, Gang Li, Yu Chen, Boyang Ji, Eduard Johannes Kerkhoven, Jens B Nielsen
Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection. Molecular systems biology 17 (10) (2022)
Feiran Li, Yu Chen, Qi Qi, Yanyan Wang, Le Yuan, Mingtao Huang, Ibrahim E Elsemman, Amir Feizi, Eduard Johannes Kerkhoven, Jens B Nielsen
Improving recombinant protein production by yeast through genome-scale modeling using proteome constraints. Nature communications 13 (1) (2022)
Carl Malina, Rosemary Yu, Johan Björkeroth, Eduard Johannes Kerkhoven, Jens B Nielsen
Adaptations in metabolism and protein translation give rise to the Crabtree effect in yeast. Proceedings of the National Academy of Sciences of the United States of America 118 (51) (2022)
Hongzhong Lu, Eduard Johannes Kerkhoven, Jens Nielsen
A Pan-Draft Metabolic Model Reflects Evolutionary Diversity across 332 Yeast Species. Biomolecules 12 (11) (2022)
Iván Domenzain, Benjamín J Sánchez, Petre Mihail Anton, Eduard Johannes Kerkhoven, Aarón Millán-Oropeza, Céline Henry, Verena Siewers, John P Morrissey, Nikolaus Sonnenschein, Jens B Nielsen
Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0. Nature communications 13 (1) (2022)
Luis Caspeta, Eduard Johannes Kerkhoven, Alfredo Martinez, Jens Nielsen
The yeastGemMap: A process diagram to assist yeast systems-metabolic studies. Biotechnology and bioengineering 118 (12) (2021)
Cheewin Kittikunapong, Suhui Ye, Patricia Magadán-Corpas, Álvaro Pérez-Valero, Claudio J Villar, Felipe Lombó, Eduard Johannes Kerkhoven
Reconstruction of a Genome-Scale Metabolic Model of Streptomyces albus J1074: Improved Engineering Strategies in Natural Product Synthesis. Metabolites 11 (5) (2021)
Naghmeh Poorinmohammad, Eduard Johannes Kerkhoven
Systems-level approaches for understanding and engineering of the oleaginous cell factory Yarrowia lipolytica. Biotechnology and bioengineering 118 (10) (2021)
Hongzhong Lu, Feiran Li, Benjamín J Sánchez, Zhengming Zhu, Gang Li, Iván Domenzain, Simonas Marcišauskas, Petre Mihail Anton, Dimitra Lappa, Christian Lieven, Moritz Emanuel Beber, Nikolaus Sonnenschein, Eduard Johannes Kerkhoven, Jens B Nielsen
Author Correction: A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism. Nature communications 11 (1) (2020)
Helberth Júnnior Santos Lopes, Nemailla Bonturi, Eduard Johannes Kerkhoven, Everson Alves Miranda, Petri-Jaan Lahtvee
C/N ratio and carbon source-dependent lipid production profiling in Rhodotorula toruloides. Applied microbiology and biotechnology 104 (6) (2020)
Jonathan L Robinson, Pinar Kocabas, Hao Wang, Pierre-Etienne Cholley, Daniel J Cook, Avlant Nilsson, Petre Mihail Anton, Raphael Ferreira, Iván Domenzain, Virinchi Billa, Angelo Limeta, Alex Hedin, Johan Gustafsson, Eduard Johannes Kerkhoven, L Thomas Svensson, Bernhard O Palsson, Adil Mardinglu, Lena Hansson, Mathias Uhlen, Jens B Nielsen
An atlas of human metabolism. Science signaling 13 (624) (2020)
Hongzhong Lu, Feiran Li, Benjamín J Sánchez, Zhengming Zhu, Gang Li, Iván Domenzain, Simonas Marcišauskas, Petre Mihail Anton, Dimitra Lappa, Christian Lieven, Moritz Emanuel Beber, Nikolaus Sonnenschein, Eduard Johannes Kerkhoven, Jens B Nielsen
A consensus S. cerevisiae metabolic model Yeast8 and its ecosystem for comprehensively probing cellular metabolism. Nature communications 10 (1) (2019)
Patrice Lubuta, Mhairi Workman, Eduard Johannes Kerkhoven, Christopher Thomas Workman
Investigating the Influence of Glycerol on the Utilization of Glucose in Yarrowia lipolytica Using RNA-Seq-Based Transcriptomics. G3 (Bethesda, Md.) 9 (12) (2019)
Ievgeniia A Tiukova, Sylvain Prigent, Jens Nielsen, Mats Sandgren, Eduard Johannes Kerkhoven
Genome-scale model of Rhodotorula toruloides metabolism. Biotechnology and bioengineering 116 (12) (2019)
Hao Wang, Simonas Marcišauskas, Benjamín J Sánchez, Iván Domenzain, Daniel Hermansson, Rasmus Agren, Jens B Nielsen, Eduard Johannes Kerkhoven
RAVEN 2.0: A versatile toolbox for metabolic network reconstruction and a case study on Streptomyces coelicolor. PLoS computational biology 14 (10) (2018)
Benjamín J Sánchez, Cheng Zhang, Avlant Nilsson, Petri-Jaan Lahtvee, Eduard Johannes Kerkhoven, Jens B Nielsen
Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints. Molecular systems biology 13 (8) (2017)
Eduard Johannes Kerkhoven, Young-Mo Kim, Siwei Wei, Carrie D Nicora, Thomas L Fillmore, Samuel O Purvine, Bobbie-Jo Webb-Robertson, Richard D Smith, Scott E Baker, Thomas O Metz, Jens B Nielsen
Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica. mBio 8 (3) (2017)
Eduard Johannes Kerkhoven, Kyle R Pomraning, Scott E Baker, Jens B Nielsen
Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica. NPJ systems biology and applications 2 (2016)