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standard-GEM: standardization of open-source genome-scale metabolic models
View ORCID ProfileMihail Anton, View ORCID ProfileEivind Almaas, View ORCID ProfileRui Benfeitas, View ORCID ProfileSara Benito-Vaquerizo, View ORCID ProfileLars M. Blank, View ORCID ProfileAndreas Dräger, View ORCID ProfileJohn M. Hancock, View ORCID ProfileCheewin Kittikunapong, View ORCID ProfileMatthias König, View ORCID ProfileFeiran Li, View ORCID ProfileUlf W. Liebal, Hongzhong Lu, View ORCID ProfileHongwu Ma, View ORCID ProfileRadhakrishnan Mahadevan, View ORCID ProfileAdil Mardinoglu, View ORCID ProfileJens Nielsen, View ORCID ProfileJuan Nogales, View ORCID ProfileMarco Pagni, View ORCID ProfileJason A. Papin, View ORCID ProfileKiran Raosaheb Patil, View ORCID ProfileNathan D. Price, View ORCID ProfileJonathan L. Robinson, View ORCID ProfileBenjamín J. Sánchez, View ORCID ProfileMaria Suarez-Diez, View ORCID ProfileSnorre Sulheim, View ORCID ProfileL. Thomas Svensson, View ORCID ProfileBas Teusink, View ORCID ProfileWanwipa Vongsangnak, View ORCID ProfileHao Wang, View ORCID ProfileAhmad A. Zeidan, View ORCID ProfileEduard J. Kerkhoven
doi: https://doi.org/10.1101/2023.03.21.512712
Mihail Anton
1Department of Life Sciences, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Chalmers University of Technology, Gothenburg SE-41258, Sweden
Eivind Almaas
2Department of Biotechnology and Food Science, NTNU - Norwegian University of Science and Technology, Sem Sælands veg 6/8, N-7491 Trondheim, Norway
Rui Benfeitas
3National Bioinformatics Infrastructure Sweden (NBIS), Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Tomtebodavägen 23A, Solna SE-17165, Sweden
Sara Benito-Vaquerizo
4Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Stippeneng 4 6708 WE, Wageningen, The Netherlands
Lars M. Blank
5iAMB - Institute of Applied Microbiology, ABBT, RWTH Aachen University, 52074 Aachen, Germany
Andreas Dräger
6Computational Systems Biology of Infections and Antimicrobial-Resistant Pathogens, Institute for Bioinformatics and Medical Informatics (IBMI), Department of Computer Science, Eberhard Karl University of Tübingen, 72076 Tübingen, Germany
John M. Hancock
7Institute of Biochemistry, Faculty of Medicine, University of Ljubljana, Zaloška 4, 1000 Ljubljana, Slovenia
Cheewin Kittikunapong
8Department of Life Sciences, Chalmers University of Technology, Kemivägen 10, SE-41258 Gothenburg, Sweden
Matthias König
9Institute for Biology, Institute for Theoretical Biology, Systems Medicine of the Liver Lab, Humboldt-University Berlin, Philippstraße 13, 10115 Berlin, Germany
Feiran Li
8Department of Life Sciences, Chalmers University of Technology, Kemivägen 10, SE-41258 Gothenburg, Sweden
Ulf W. Liebal
5iAMB - Institute of Applied Microbiology, ABBT, RWTH Aachen University, 52074 Aachen, Germany
Hongzhong Lu
10State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
Hongwu Ma
11Biodesign Center, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China
Radhakrishnan Mahadevan
12Department of Chemical Engineering and Applied Chemistry; Institute of Biomedical Engineering, University of Toronto, 200, College Street, University of Toronto
Adil Mardinoglu
13Science for Life Laboratory, KTH - Royal Institute of Technology, Stockholm, Sweden
14Centre for Host-Microbiome Interactions, Faculty of Dentistry, Oral & Craniofacial Sciences, King’s College London, London, United Kingdom
Jens Nielsen
15Department of Life Sciences, Chalmers University of Technology, Gothenburg SE-412 96, Sweden
16Novo Nordisk Foundation Center for Biosustainability, Chalmers University of Technology, Gothenburg SE-412 96, Sweden
17BioInnovation Institute, Ole Maaløes Vej 3, Copenhagen DK-2200, Denmark
Juan Nogales
18Department of Systems Biology, Centro Nacional de Biotecnología, CSIC, C/ Darwin 3, Madrid, Spain
Marco Pagni
19Vital-IT group, SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland
Jason A. Papin
20Department of Biomedical Engineering, University of Virginia, Charlottesville, Virginia, USA
Kiran Raosaheb Patil
21Medical Research Council Toxicology Unit, University of Cambridge, Cambridge, UK
Nathan D. Price
22Thorne HealthTech, New York, NY 10019, USA
23Institute for Systems Biology Seattle, WA 98109, USA
Jonathan L. Robinson
17BioInnovation Institute, Ole Maaløes Vej 3, Copenhagen DK-2200, Denmark
Benjamín J. Sánchez
24Systems Biology, Discovery, R&D, Chr. Hansen A/S, 2970 Hørsholm, Denmark
Maria Suarez-Diez
4Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Stippeneng 4 6708 WE, Wageningen, The Netherlands
Snorre Sulheim
25Department of Biotechnology and Nanomedicine, SINTEF Industry, Richard Birkelands vei 3, 7052 Trondheim, Norway
L. Thomas Svensson
1Department of Life Sciences, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Chalmers University of Technology, Gothenburg SE-41258, Sweden
Bas Teusink
26Systems Biology Lab, Amsterdam Institute of Molecular and Life Science, VU University Amsterdam, O2 building, location code 2E51, De Boelelaan 1085, 1081HV Amsterdam, The Netherlands
Wanwipa Vongsangnak
27Department of Zoology, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand
Hao Wang
8Department of Life Sciences, Chalmers University of Technology, Kemivägen 10, SE-41258 Gothenburg, Sweden
Ahmad A. Zeidan
24Systems Biology, Discovery, R&D, Chr. Hansen A/S, 2970 Hørsholm, Denmark
Eduard J. Kerkhoven
8Department of Life Sciences, Chalmers University of Technology, Kemivägen 10, SE-41258 Gothenburg, Sweden
Article usage
Posted March 23, 2023.
standard-GEM: standardization of open-source genome-scale metabolic models
Mihail Anton, Eivind Almaas, Rui Benfeitas, Sara Benito-Vaquerizo, Lars M. Blank, Andreas Dräger, John M. Hancock, Cheewin Kittikunapong, Matthias König, Feiran Li, Ulf W. Liebal, Hongzhong Lu, Hongwu Ma, Radhakrishnan Mahadevan, Adil Mardinoglu, Jens Nielsen, Juan Nogales, Marco Pagni, Jason A. Papin, Kiran Raosaheb Patil, Nathan D. Price, Jonathan L. Robinson, Benjamín J. Sánchez, Maria Suarez-Diez, Snorre Sulheim, L. Thomas Svensson, Bas Teusink, Wanwipa Vongsangnak, Hao Wang, Ahmad A. Zeidan, Eduard J. Kerkhoven
bioRxiv 2023.03.21.512712; doi: https://doi.org/10.1101/2023.03.21.512712
standard-GEM: standardization of open-source genome-scale metabolic models
Mihail Anton, Eivind Almaas, Rui Benfeitas, Sara Benito-Vaquerizo, Lars M. Blank, Andreas Dräger, John M. Hancock, Cheewin Kittikunapong, Matthias König, Feiran Li, Ulf W. Liebal, Hongzhong Lu, Hongwu Ma, Radhakrishnan Mahadevan, Adil Mardinoglu, Jens Nielsen, Juan Nogales, Marco Pagni, Jason A. Papin, Kiran Raosaheb Patil, Nathan D. Price, Jonathan L. Robinson, Benjamín J. Sánchez, Maria Suarez-Diez, Snorre Sulheim, L. Thomas Svensson, Bas Teusink, Wanwipa Vongsangnak, Hao Wang, Ahmad A. Zeidan, Eduard J. Kerkhoven
bioRxiv 2023.03.21.512712; doi: https://doi.org/10.1101/2023.03.21.512712
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