Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

Schellenberger, Jan, Que, Richard, Fleming, Ronan M T, Thiele, Ines, Orth, Jeffrey D, Feist, Adam M, Zielinski, Daniel C, Bordbar, Aarash +5 more·2011·Nature Protocols
DOI 10.1038/nprot.2011.308

Cited by (1,002)

Items 901–1,000 of 1,002

  1. Metabolic Changes in Klebsiella oxytoca in Response to Low Oxidoreduction Potential, as Revealed by Comparative Proteomic Profiling Integrated with Flux Balance Analysis
    Yan Zhu, Dan Li, Guanhui Bao, Shaohua Wang, Shaoming Mao, Jiangning Song, Yin Li, Yanping Zhang · 2014 · Applied and Environmental Microbiology
  2. Complementary elementary modes for fast and efficient analysis of metabolic networks
    Md. Bahadur Badsha, Ryo Tsuboi, Hiroyuki Kurata · 2014 · Biochemical Engineering Journal
  3. Comprehensive evaluation of two genome‐scale metabolic network models for Scheffersomyces stipitis
    Andrew L. Damiani, Q. Peter He, Thomas W. Jeffries, Jin Wang · 2015 · Biotechnology and Bioengineering
  4. Acceleration Strategies to Enhance Metabolic Ensemble Modeling Performance
    Jennifer L. Greene, Andreas Wäechter, Keith E. J. Tyo, Linda J. Broadbelt · 2017 · Biophysical Journal
  5. Reconciling high-throughput gene essentiality data with metabolic network reconstructions
    Anna S. Blazier, Jason A. Papin · 2019 · PLoS Computational Biology
  6. Elucidating potential molecular signatures through host-microbe interactions for reactive arthritis and inflammatory bowel disease using combinatorial approach
    Anukriti Verma, Shivani Sharda, Bhawna Rathi, Pallavi Somvanshi, Bimlesh Dhar Pandey · 2020 · Scientific Reports
  7. Systematically gap-filling the genome-scale metabolic model of CHO cells
    Hamideh Fouladiha, Sayed‐Amir Marashi, Shangzhong Li, Zerong Li, Helen O. Masson, Behrouz Vaziri, Nathan E. Lewis · 2020 · Biotechnology Letters
  8. Enforcing ATP hydrolysis enhanced anaerobic glycolysis and promoted solvent production in Clostridium acetobutylicum
    Zongjie Dai, Yan Zhu, Hongjun Dong, Chunhua Zhao, Yanping Zhang, Yin Li · 2021 · Microbial Cell Factories
  9. Retrosynthetic Design of Heterologous Pathways
    Pablo Carbonell, Anne‐Gaëlle Planson, Jean‐Loup Faulon · 2013 · Methods in molecular biology
  10. Deriving metabolic engineering strategies from genome‐scale modeling with flux ratio constraints
    Jiun Yang Yen, Hadi Nazem‐Bokaee, Benjamin G. Freedman, Ahmad I. M. Athamneh, Ryan S. Senger · 2013 · Biotechnology Journal
  11. The neural stem cell fate determinant TRIM32 regulates complex behavioral traits
    Anna‐Lena Hillje, Elisabeth Beckmann, Maria Angeliki S. Pavlou, Christian Jaeger, Maria Pires Pacheco, Thomas Sauter, Jens Christian Schwamborn, Lars Lewejohann · 2015 · Frontiers in Cellular Neuroscience
  12. Reconstruction of a generic metabolic network model of cancer cells
    Mahdieh Hadi, Sayed‐Amir Marashi · 2014 · Molecular BioSystems
  13. Dynamic flux balance analysis of batch fermentation: effect of genetic manipulations on ethanol production
    K. P. Lisha, Debasis Sarkar · 2013 · Bioprocess and Biosystems Engineering
  14. Towards improved genome-scale metabolic network reconstructions: unification, transcript specificity and beyond
    Thomas Pfau, Maria Pires Pacheco, Thomas Sauter · 2015 · Briefings in Bioinformatics
  15. Solving Multiscale Linear Programs Using the Simplex Method in Quadruple Precision
    Ding Ma, Michael A. Saunders · 2015 · Springer proceedings in mathematics & statistics
  16. Genome-scale metabolic models as platforms for strain design and biological discovery
    Bashir Sajo Mienda · 2016 · Journal of Biomolecular Structure and Dynamics
  17. A systems biology approach to investigate the antimicrobial activity of oleuropein
    Xianhua Li, Yanhong Liu, Qian Jia, Virginia LaMacchia, Kathryn O’Donoghue, Zuyi Jacky Huang · 2016 · Journal of Industrial Microbiology & Biotechnology
  18. Reconstruction of a genome-scale metabolic model and in silico analysis of the polymalic acid producer Aureobasidium pullulans CCTCC M2012223
    Jun Feng, Jing Yang, Xiaorong Li, Meijin Guo, Bochu Wang, Shang‐Tian Yang, Xiang Zou · 2016 · Gene
  19. Understanding carbon utilization routes between high and low starch-producing cultivars of cassava through Flux Balance Analysis
    Porntip Chiewchankaset, Wanatsanan Siriwat, Malinee Suksangpanomrung, Opas Boonseng, Asawin Meechai, Morakot Tanticharoen, Saowalak Kalapanulak, Treenut Saithong · 2019 · Scientific Reports
  20. Organism Engineering for the Bioproduction of the Triaminotrinitrobenzene (TATB) Precursor Phloroglucinol (PG)
    Adam J. Meyer, Ishtiaq Saaem, Adam D. Silverman, Vanessa A. Varaljay, Rebecca L. Mickol, Steven M. Blum, Alexander V. Tobias, Nathan D. Schwalm, Wais Mojadedi, Elizabeth L. Onderko et al. · 2019 · ACS Synthetic Biology
  21. A dynamic multi-tissue model to study human metabolism
    Patricia Martins Conde, Thomas Pfau, Maria Pires Pacheco, Thomas Sauter · 2021 · npj Systems Biology and Applications
  22. Mitigating biomass composition uncertainties in flux balance analysis using ensemble representations
    Yoon-Mi Choi, Dong‐Hyuk Choi, Yi Qing Lee, Lokanand Koduru, Nathan E. Lewis, Meiyappan Lakshmanan, Dong‐Yup Lee · 2023 · Computational and Structural Biotechnology Journal
  23. ReconMap: An interactive visualisation of human metabolism
    Alberto Noronha, Anna Dröfn Daníelsdóttir, Freyr Jóhannsson, Soffía Jónsdóttir, Sindri Jarlsson, Jón Pétur Gunnarsson, Sigurður Brynjólfsson, Piotr Gawron, Reinhard Schneider, Ines Thiele et al. · 2016 · arXiv (Cornell University)
  24. Mathematical models of plant metabolism
    Shi, Hai, Schwender, Jörg · 2016 · Current Opinion in Biotechnology
  25. An integrated multiphase dynamic genome-scale model explains batch fermentations led by species of the Saccharomyces genus
    Artai R. Moimenta, Diego Troitiño-Jordedo, David Henriques, Alba Contreras-Ruíz, Romain Minebois, Miguel Morard, Eladio Barrio, Amparo Querol, Eva Balsa‐Canto · 2025 · mSystems
  26. The landscape of tiered regulation of breast cancer cell metabolism
    Rotem Katzir, Ibrahim H. Polat, Michal Harel, Shir Katz, Carles Foguet, Vitaly A. Selivanov, Philippe Sabatier, Marta Cascante, Tamar Geiger, Eytan Ruppin · 2019 · Scientific Reports
  27. Parkinson’s Disease and the Metal–Microbiome–Gut–Brain Axis: A Systems Toxicology Approach
    Lady Johanna Forero-Rodríguez, Jonathan Josephs‐Spaulding, Stefano Flor, Andrés Mauricio Pinzón, Christoph Kaleta · 2021 · Antioxidants
  28. Required Gene Set for Autotrophic Growth of Clostridium autoethanogenum
    Craig Woods, Christopher M. Humphreys, Claudio Tomi-Andrino, Anne Meint Henstra, Michael Köpke, Séan Dennis Simpson, Klaus Winzer, Nigel Peter Minton · 2022 · Applied and Environmental Microbiology
  29. Advances and applications of machine learning and intelligent optimization algorithms in genome-scale metabolic network models
    Lidan Bai, Qi You, Chenyang Zhang, Jun Sun, Long Liu, Hengyang Lu, Qidong Chen · 2022 · Systems Microbiology and Biomanufacturing
  30. Systems biology of cancer: moving toward the integrative study of the metabolic alterations in cancer cells
    Claudia E. Hernández Patiño, Gustavo Jaime-Muñoz, Osbaldo Reséndis-Antonio · 2013 · Frontiers in Physiology
  31. Filling Kinetic Gaps: Dynamic Modeling of Metabolism Where Detailed Kinetic Information Is Lacking
    Osbaldo Reséndis-Antonio · 2009 · PLoS ONE
  32. Model-based design of synthetic, biological systems
    Nathan Crook, Hal S. Alper · 2012 · Chemical Engineering Science
  33. A computational tool for the simulation and optimization of microbial strains accounting integrated metabolic/regulatory information
    Paulo Vilaça, Isabel Rocha, Miguel Rocha · 2010 · Biosystems
  34. A Genome-Scale Model of Shewanella piezotolerans Simulates Mechanisms of Metabolic Diversity and Energy Conservation
    Keith Dufault‐Thompson, Huahua Jian, Rui-Xue Cheng, Jiefu Li, Fengping Wang, Ying Zhang · 2017 · mSystems
  35. The JBEI quantitative metabolic modeling library (jQMM): a python library for modeling microbial metabolism
    Garrett W. Birkel, Amit Ghosh, Vinay Satish Kumar, Daniel S. Weaver, David Ando, Tyler W. H. Backman, Adam P. Arkin, Jay D. Keasling, Héctor García Martín · 2017 · BMC Bioinformatics
  36. Optimization of Multi-Omic Genome-Scale Models: Methodologies, Hands-on Tutorial, and Perspectives
    Supreeta Vijayakumar, Max Conway, Píetro Lió, Claudio Angione · 2017 · Methods in molecular biology
  37. Genome-scale metabolic reconstruction and metabolic versatility of an obligate methanotroph Methylococcus capsulatus str. Bath
    Ankit Gupta, Ahmad Ahmad, Dipesh Chothwe, Midhun K. Madhu, Shireesh Srivastava, Vineet K. Sharma · 2019 · PeerJ
  38. Uncovering Novel Pathways for Enhancing Hyaluronan Synthesis in Recombinant Lactococcus lactis: Genome-Scale Metabolic Modeling and Experimental Validation
    Abinaya Badri, Karthik Raman, Guhan Jayaraman · 2019 · Processes
  39. Integration of probabilistic regulatory networks into constraint-based models of metabolism with applications to Alzheimer’s disease
    Han Yu, Rachael Hageman Blair · 2019 · BMC Bioinformatics
  40. Identifying metabolic features and engineering targets for productivity improvement in CHO cells by integrated transcriptomics and genome-scale metabolic model
    Zhuangrong Huang, Seongkyu Yoon · 2020 · Biochemical Engineering Journal
  41. Inhibition of mitochondrial complex II in neuronal cells triggers unique pathways culminating in autophagy with implications for neurodegeneration
    Sathyanarayanan Ranganayaki, Neema Jamshidi, Mohamad Aiyaz, Rashmi Santhoshkumar, Narayanappa Gayathri, Pulleri Kandi Harsha, Balasundaram Padmanabhan, M. M. Srinivas Bharath · 2021 · Scientific Reports
  42. A Computational Framework for Studying Gut-Brain Axis in Autism Spectrum Disorder
    Faiz Khan Mohammad, Meghana Venkata Palukuri, Shruti Shivakumar, Raghunathan Rengaswamy, Swagatika Sahoo · 2022 · Frontiers in Physiology
  43. Metabolic signatures of regulation by phosphorylation and acetylation
    Kirk Smith, Fangzhou Shen, Ho‐Joon Lee, Sriram Chandrasekaran · 2022 · iScience
  44. Rapid Countermeasure Discovery against Francisella tularensis Based on a Metabolic Network Reconstruction
    Sidhartha Chaudhury, Mohamed Diwan M. AbdulHameed, Narender Pal Singh, Gregory J. Tawa, Patrik D’haeseleer, Adam T Zemla, Ali Navid, Carol E. Zhou, Matthew C. Franklin, Jonah Cheung et al. · 2013 · PLoS ONE
  45. Parkinson’s disease: dopaminergic nerve cell model is consistent with experimental finding of increased extracellular transport of α-synuclein
    Finja Büchel, Sandra Saliger, Andreas Dräger, Stephanie Hoffmann, Clemens Wrzodek, Andreas Zell, Philipp J. Kahle · 2013 · BMC Neuroscience
  46. Functional comparison of metabolic networks across species
    Charlotte Ramon, Jörg Stelling · 2023 · Nature Communications
  47. Modeling metabolism and stage-specific growth of Plasmodium falciparum HB3 during the intraerythrocytic developmental cycle
    Xin De Fang, Jaques Reifman A, Anders Wallqvist · 2014 · Molecular BioSystems
  48. Computational Identification of Metabolic Pathways ofPlasmodium falciparumusing the k -Shortest Path Algorithm
    Jelili O. Oyelade, Itunuoluwa Isewon, Olufemi Aromolaran, Efosa Uwoghiren, Titilope M. Dokunmu, Solomon O. Rotimi, Oluwadurotimi Samuel Aworunse, Olawole Odun Obembe, Ezekiel Femi Adebiyi · 2019 · International Journal of Genomics
  49. Analysis of metabolic network disruption in engineered microbial hosts due to enzyme promiscuity
    Vladimir O. Porokhin, Sara Adel Amin, Trevor B. Nicks, Venkatesh Endalur Gopinarayanan, Nikhil U. Nair, Soha Hassoun · 2021 · Metabolic Engineering Communications
  50. Characterization of the Metabolic Requirements in Yeast Meiosis
    Debjit Ray, Ping Ye · 2013 · PLoS ONE
  51. Rapid Analysis of Pharmacology for Infectious Diseases
    A. Hopkins, G. R. Bickerton, Ian M. Carruthers, S. Boyer, H. Rubin, John P. Overington · 2011 · Current Topics in Medicinal Chemistry
  52. METABOLIC MODELLING IN THE DEVELOPMENT OF CELL FACTORIES BY SYNTHETIC BIOLOGY
    Paula Jouhten · 2012 · Computational and Structural Biotechnology Journal
  53. MetNetMaker: a free and open-source tool for the creation of novel metabolic networks in SBML format
    Thomas Forth, Glenn A. McConkey, David R. Westhead · 2010 · Bioinformatics
  54. Solving Puzzles With Missing Pieces: The Power of Systems Biology
    James T. Yurkovich, Bernhard Ørn Palsson · 2015 · Proceedings of the IEEE
  55. Adaptive Genetic Robustness ofEscherichia coliMetabolic Fluxes
    Wei-Chin Ho, Jianzhi Zhang · 2016 · Molecular Biology and Evolution
  56. The use of genome-scale metabolic network reconstruction to predict fluxes and equilibrium composition of N-fixing versus C-fixing cells in a diazotrophic cyanobacterium, Trichodesmium erythraeum
    Joseph J. Gardner, Nanette R. Boyle · 2017 · BMC Systems Biology
  57. Systems-based Saccharomyces cerevisiae strain design for improved squalene synthesis
    Kalaivani Paramasivan, Punil Kumar HN, Sarma Mutturi · 2019 · Biochemical Engineering Journal
  58. A systematic simulation of the effect of salicylic acid on sphingolipid metabolism
    Chao Shi, Jian Yin, Zhe Liu, Jianxin Wu, Qi Zhao, Jian Min Ren, Nan Yao · 2015 · Frontiers in Plant Science
  59. Biological molecular layer classification of muscle-invasive bladder cancer opens new treatment opportunities
    Lucía Trilla‐Fuertes, Angelo Gámez‐Pozo, Guillermo Prado-Vázquez, Andrea Zapater‐Moros, Mariana Díaz‐Almirón, Jorge M. Arevalillo, María Ferrer-Gómez, Hilario Navarro, Paloma Maı́n, Enrique Espinosa et al. · 2019 · BMC Cancer
  60. The Key Role of Purine Metabolism in the Folate-Dependent Phenotype of Autism Spectrum Disorders: An In Silico Analysis
    Jan Géryk, Daniel Krsička, Markéta Vlčková, Markéta Havlovičová, Milan Maçek, Radka Kremlíková Pourová · 2020 · Metabolites
  61. Multi‐scale modeling of Arabidopsis thaliana response to different CO2 conditions: From gene expression to metabolic flux
    Lin Liu, Fangzhou Shen, Changpeng Xin, Zhuo Wang · 2015 · Journal of Integrative Plant Biology
  62. Adaptive Evolution of Thermotoga maritima Reveals Plasticity of the ABC Transporter Network
    Haythem Latif, Merve Şahin, Janna Tarasova, Yekaterina Tarasova, Vasiliy A. Portnoy, Juan Nogales, Karsten Zengler · 2015 · Applied and Environmental Microbiology
  63. Improvement of constraint‐based flux estimation during L‐phenylalanine production with Escherichia coli using targeted knock‐out mutants
    Michael Weiner, Julia Tröndle, Christoph Albermann, Georg A. Sprenger, Dirk Weuster‐Botz · 2014 · Biotechnology and Bioengineering
  64. (Post-)Genomics approaches in fungal research
    María Victoria Aguilar Pontes, Ronald P. de Vries, Miaomiao Zhou · 2014 · Briefings in Functional Genomics
  65. Constraints-based stoichiometric analysis of hypoxic stress on steroidogenesis in fathead minnows, Pimephales promelas
    David N. Hala, Lene H. Petersen, Dalma Martinović‐Weigelt, Duane B. Huggett · 2012 · Journal of Experimental Biology
  66. Metabolic flux understanding of Pichia pastoris grown on heterogenous culture media
    José M. González‐Martínez, Abel Folch‐Fortuny, Francisco Llaneras, M. Tortajada, Jesús Picó, Alberto Ferrer · 2014 · Chemometrics and Intelligent Laboratory Systems
  67. Modeling the Differences in Biochemical Capabilities ofPseudomonasSpecies by Flux Balance Analysis: How Good Are Genome-Scale Metabolic Networks at Predicting the Differences?
    Parizad Babaei, Tahereh Ghasemi-Kahrizsangi, Sayed‐Amir Marashi · 2014 · The Scientific World JOURNAL
  68. Elucidation of the regulatory role of the fructose operon reveals a novel target for enhancing the NADPH supply in Corynebacterium glutamicum
    Zhihao Wang, Siu Hung Joshua Chan, Suresh Sudarsan, Lars M. Blank, Peter Ruhdal Jensen, Christian Solem · 2016 · Metabolic Engineering
  69. Machine learning-guided evaluation of extraction and simulation methods for cancer patient-specific metabolic models
    Sang Mi Lee, GaRyoung Lee, Hyun Uk Kim · 2022 · Computational and Structural Biotechnology Journal
  70. A new metabolic model of Drosophila melanogaster and the integrative analysis of Parkinson’s disease
    Müberra Fatma Cesur, Arianna Basile, Kiran Raosaheb Patil, Tunahan Çakır · 2023 · Life Science Alliance
  71. Reconstruction and validation of a constraint‐based metabolic network model for bone marrow‐derived mesenchymal stem cells
    Hamideh Fouladiha, Sayed‐Amir Marashi, Mohammad Ali Shokrgozar · 2015 · Cell Proliferation
  72. Identifying All Moiety Conservation Laws in Genome-Scale Metabolic Networks
    Andrea De Martino, Daniele De Martino, Roberto Mulet, Andrea Pagnani · 2014 · PLoS ONE
  73. Metabolic flux ratio analysis and multi-objective optimization revealed a globally conserved and coordinated metabolic response of E. coli to paraquat-induced oxidative stress
    Tie Shen, Bin Rui, Hong Wei Zhou, Ximing Zhang, Yin Yi, Wen Han, Haoran Zheng, Jihui Wu, Yunyu Shi · 2012 · Molecular BioSystems
  74. Synthetic Biology Outside the Cell: Linking Computational Tools to Cell-Free Systems
    Daniel D. Lewis, Fernando D. Villarreal, Fan Wu, Cheemeng Tan · 2014 · Frontiers in Bioengineering and Biotechnology
  75. Evaluating enzymatic synthesis of small molecule drugs
    Matthew Moura, Justin D. Finkle, Sarah C. Stainbrook, Jennifer Greene, Linda J. Broadbelt, Keith E. J. Tyo · 2015 · Metabolic Engineering
  76. Conditions for duality between fluxes and concentrations in biochemical networks
    Ronan M. T. Fleming, Nikos A. Vlassis, Ines Thiele, Michael A. Saunders · 2016 · Journal of Theoretical Biology
  77. Hepatotoxicity prediction by systems biology modeling of disturbed metabolic pathways using gene expression data
    Pablo Carbonell · 2016 · ALTEX
  78. Robust Analysis of Fluxes in Genome-Scale Metabolic Pathways
    Michael R. MacGillivray, Amy Ko, Emily Gruber, Miranda Sawyer, Eivind Almaas, Allen G. Holder · 2017 · Scientific Reports
  79. Transcriptomics-driven lipidomics (TDL) identifies the microbiome-regulated targets of ileal lipid metabolism
    Anirikh Chakrabarti, Mathieu Membrez, Delphine Morin‐Rivron, Jay Siddharth, Chieh Jason Chou, Hugues Henry, Stephen Bruce, Sylviane Métairon, Frédéric Raymond, Bertrand Bétrisey et al. · 2017 · npj Systems Biology and Applications
  80. Resources and tools for the high-throughput, multi-omic study of intestinal microbiota
    Aitor Blanco‐Míguez, Florentino Fdez‐Riverola, Borja Sánchez, Anália Maria Garcia Lourenço · 2017 · Briefings in Bioinformatics
  81. The FASTCORE Family: For the Fast Reconstruction of Compact Context-Specific Metabolic Networks Models
    Maria Pires Pacheco, Thomas Sauter · 2017 · Methods in molecular biology
  82. Metabolic Modeling of Pectobacterium parmentieri SCC3193 Provides Insights into Metabolic Pathways of Plant Pathogenic Bacteria
    Sabina Żołędowska, Luana Presta, Marco Fondi, Francesca Decorosi, Luciana Giovannetti, Alessio Mengoni, Ewa Łojkowska · 2019 · Microorganisms
  83. Unlocking Human Brain Metabolism by Genome-Scale and Multiomics Metabolic Models: Relevance for Neurology Research, Health, and Disease
    Mustafa Sertbaş, Kutlu Ö. Ülgen · 2018 · OMICS A Journal of Integrative Biology
  84. Tn-Core: A Toolbox for Integrating Tn-seq Gene Essentiality Data and Constraint-Based Metabolic Modeling
    George Colin diCenzo, Alessio Mengoni, Marco Fondi · 2018 · ACS Synthetic Biology
  85. Rational metabolic engineering for enhanced alpha-tocopherol production in Helianthus annuus cell culture
    Aparajitha Srinivasan, Vijayakumar S, Karthik Raman, Smita Srivastava · 2019 · Biochemical Engineering Journal
  86. Metabolic network modeling approaches for investigating the “hungry cancer”
    Ashwini Kumar Sharma, Rainer König · 2013 · Seminars in Cancer Biology
  87. A multi-level multi-scale approach to study essential genes in Mycobacterium tuberculosis
    Soma Ghosh, Priyanka Baloni, Sumanta Mukherjee, Praveen Anand, Nagasuma R Chandra · 2013 · BMC Systems Biology
  88. Individualized therapy of HHT driven by network analysis of metabolomic profiles
    Neema Jamshidi, Franklin J. Miller, Jess Mandel, Timothy Evans, Michael Kuo · 2011 · BMC Systems Biology
  89. Genome-scale reconstruction of a metabolic network for Gluconobacter oxydans 621H
    Xinsen Wu, Xiaoyang Wang, Wenyu Lu · 2014 · Biosystems
  90. Metabolic impact of an NADH-producing glucose-6-phosphate dehydrogenase in Escherichia coli
    Karel Olavarría, Jessica De Ingeniis, Daniel Craig Zielinski, Matías Fuentealba, Rodrigo Muñoz, Douglas McCloskey, Adam M. Feist, Ricardo Cabrera · 2014 · Microbiology
  91. Reconstructing High-Quality Large-Scale Metabolic Models with merlin
    Óscar Dias, Miguel Rocha, Eugénio Campos Ferreira, Isabel Rocha · 2017 · Methods in molecular biology
  92. Dynamic Flux Balance Analysis Using DFBAlab
    Jose Alberto Gomez, Paul I. Barton · 2017 · Methods in molecular biology
  93. Metabolomics assisted metabolic network modeling and network wide analysis of metabolites in microbiology
    Junhua Wang, Cheng Wang, Huanhuan Liu, Haishan Qi, Hong Chen, Jianping Wen · 2018 · Critical Reviews in Biotechnology
  94. Basics of genome-scale metabolic modeling and applications on C1-utilization
    Ilyas Kabimoldayev, Anh Duc Nguyen, Laurence Yang, Sunghoon Park, Eun Yeol Lee, Donghyuk Kim · 2018 · FEMS Microbiology Letters
  95. Improving l-phenylacetylcarbinol production in Saccharomyces cerevisiae by in silico aided metabolic engineering
    Elham Iranmanesh, Mohammad Ali Asadollahi, Davoud Biria · 2019 · Journal of Biotechnology
  96. Vitreoscilla Haemoglobin: A Tool to Reduce Overflow Metabolism
    Hilal Taymaz‐Nikerel, Alvaro R. Lara · 2021 · Microorganisms
  97. Highlighting the potential of Synechococcus elongatus PCC 7942 as platform to produce α-linolenic acid through an updated genome-scale metabolic modeling
    María Santos‐Merino, Álvaro Gargantilla-Becerra, Fernando de la Cruz, Juan Nogales · 2023 · Frontiers in Microbiology
  98. Rewiring Saccharomyces cerevisiae metabolism for optimised Taxol® precursors production
    Behnaz Nowrouzi, Pablo Torres-Montero, Eduard Johannes Kerkhoven, José Luis Martínez, Leonardo Rios‐Solis · 2023 · Metabolic Engineering Communications
  99. Spatial chemistry of citrus reveals molecules bactericidal to Candidatus Liberibacter asiaticus
    Alexander A. Aksenov, Alex A. Blacutt, Nichole A. Ginnan, Philippe E. Rolshausen, Alexey V. Melnik, Ali Lotfi, Emily C. Gentry, Manikandan Ramasamy, Cristal Zúñiga, Karsten Zengler et al. · 2024 · Scientific Reports
  100. Understanding the causes and implications of endothelial metabolic variation in cardiovascular disease through genome-scale metabolic modeling
    McGarrity, Sarah, Halldórsson, Haraldur, Palsson, Sirus, Johansson, Pär I., Rolfsson, Óttar · 2016 · Frontiers in Cardiovascular Medicine