通量平衡分析是什么？
What is flux balance analysis?
机构信息
University of California San Diego, La Jolla, California, USA.
出版信息
Nat Biotechnol. 2010 Mar;28(3):245-8. doi: 10.1038/nbt.1614.
Abstract
Flux balance analysis is a mathematical approach for analyzing the flow of metabolites through a metabolic network. This primer covers the theoretical basis of the approach, several practical examples and a software toolbox for performing the calculations.
摘要
通量平衡分析是一种用于分析代谢网络中代谢物流动的数学方法。本入门指南涵盖了该方法的理论基础、几个实际示例以及用于执行计算的软件工具箱。
相似文献
1
What is flux balance analysis?通量平衡分析是什么？
Nat Biotechnol. 2010 Mar;28(3):245-8. doi: 10.1038/nbt.1614.
2
Finding elementary flux modes in metabolic networks based on flux balance analysis and flux coupling analysis: application to the analysis of Escherichia coli metabolism.基于通量平衡分析和通量耦合分析的代谢网络基本通量模式的发现：在大肠杆菌代谢分析中的应用。
Biotechnol Lett. 2013 Dec;35(12):2039-44. doi: 10.1007/s10529-013-1328-x.
3
Detecting the Significant Flux Backbone of Escherichia coli metabolism.检测大肠杆菌代谢的重要通量骨干。
FEBS Lett. 2017 May;591(10):1437-1451. doi: 10.1002/1873-3468.12650. Epub 2017 May 2.
4
Dynamic flux balance analysis for synthetic microbial communities.合成微生物群落的动态通量平衡分析
IET Syst Biol. 2014 Oct;8(5):214-29. doi: 10.1049/iet-syb.2013.0021.
5
Flux balance analysis accounting for metabolite dilution.通量平衡分析考虑代谢物稀释。
Genome Biol. 2010;11(4):R43. doi: 10.1186/gb-2010-11-4-r43. Epub 2010 Apr 16.
6
Prediction of microbial growth rate versus biomass yield by a metabolic network with kinetic parameters.通过具有动力学参数的代谢网络预测微生物生长速率与生物量产率。
PLoS Comput Biol. 2012;8(7):e1002575. doi: 10.1371/journal.pcbi.1002575. Epub 2012 Jul 5.
7
Network news: innovations in 21st century systems biology.网络新闻：21 世纪系统生物学的创新。
Cell. 2011 Mar 18;144(6):844-9. doi: 10.1016/j.cell.2011.03.008.
8
A metabolite-centric view on flux distributions in genome-scale metabolic models.以代谢物为中心看待基因组规模代谢模型中的通量分布。
BMC Syst Biol. 2013 Apr 12;7:33. doi: 10.1186/1752-0509-7-33.
9
Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli.用于预测大肠杆菌细胞内通量的目标函数的系统评估。
Mol Syst Biol. 2007;3:119. doi: 10.1038/msb4100162. Epub 2007 Jul 10.
10
Including metabolite concentrations into flux balance analysis: thermodynamic realizability as a constraint on flux distributions in metabolic networks.将代谢物浓度纳入通量平衡分析：热力学可实现性作为对代谢网络中通量分布的一种约束
BMC Syst Biol. 2007 Jun 1;1:23. doi: 10.1186/1752-0509-1-23.
引用本文的文献
1
The Product neutrality function defining genetic interactions emerges from mechanistic models of cell growth.定义基因相互作用的产物中性功能源自细胞生长的机制模型。
Elife. 2025 Sep 2;14:RP105265. doi: 10.7554/eLife.105265.
2
Genome-Scale Metabolic Modeling Predicts Per- and Polyfluoroalkyl Substance-Mediated Early Perturbations in Liver Metabolism.全基因组尺度代谢模型预测全氟和多氟烷基物质介导的肝脏代谢早期扰动。
Toxics. 2025 Aug 17;13(8):684. doi: 10.3390/toxics13080684.
3
MINN: A metabolic-informed neural network for integrating omics data into genome-scale metabolic modeling.MINN：一种用于将组学数据整合到基因组规模代谢模型中的代谢信息神经网络。
Comput Struct Biotechnol J. 2025 Aug 7;27:3609-3617. doi: 10.1016/j.csbj.2025.08.004. eCollection 2025.
4
Mapping out the gut microbiota-dependent trimethylamine N-oxide super pathway for systems biology applications.绘制用于系统生物学应用的肠道微生物群依赖性三甲胺 N-氧化物超级途径。
Front Syst Biol. 2023 Mar 8;3:1074749. doi: 10.3389/fsysb.2023.1074749. eCollection 2023.
5
The rise of scientific machine learning: a perspective on combining mechanistic modelling with machine learning for systems biology.科学机器学习的兴起：关于将机理建模与机器学习相结合用于系统生物学的观点。
Front Syst Biol. 2024 Aug 2;4:1407994. doi: 10.3389/fsysb.2024.1407994. eCollection 2024.
6
biomarker analysis of the adverse effects of perfluorooctane sulfonate (PFOS) exposure on the metabolic physiology of embryo-larval zebrafish.全氟辛烷磺酸（PFOS）暴露对斑马鱼胚胎-幼体代谢生理学不良影响的生物标志物分析
Front Syst Biol. 2024 Mar 27;4:1367562. doi: 10.3389/fsysb.2024.1367562. eCollection 2024.
7
Genome-scale flux balance analysis reveals redox trade-offs in the metabolism of the thermoacidophile under auto-, hetero-and methanotrophic conditions.基因组尺度通量平衡分析揭示了嗜热嗜酸菌在自养、异养和甲烷营养条件下代谢中的氧化还原权衡。
Front Syst Biol. 2024 Jan 29;4:1291612. doi: 10.3389/fsysb.2024.1291612. eCollection 2024.
8
Improvement in the prediction power of an astrocyte genome-scale metabolic model using multi-omic data.利用多组学数据提高星形胶质细胞基因组规模代谢模型的预测能力。
Front Syst Biol. 2025 Jan 3;4:1500710. doi: 10.3389/fsysb.2024.1500710. eCollection 2024.
9
Enhancing genome-scale metabolic models with kinetic data: resolving growth and citramalate production trade-offs in .用动力学数据增强基因组规模代谢模型：解决……中的生长和苹果酸生产权衡问题
Bioinform Adv. 2025 Jul 12;5(1):vbaf166. doi: 10.1093/bioadv/vbaf166. eCollection 2025.
10
Biophysical metabolic modeling of complex bacterial colony morphology.复杂细菌菌落形态的生物物理代谢建模
Cell Syst. 2025 Aug 20;16(8):101352. doi: 10.1016/j.cels.2025.101352. Epub 2025 Aug 8.
本文引用的文献
1
Metabolic capabilities of Escherichia coli: I. synthesis of biosynthetic precursors and cofactors.大肠杆菌的代谢能力：I. 生物合成前体和辅因子的合成。
J Theor Biol. 1993 Dec 21;165(4):477-502. doi: 10.1006/jtbi.1993.1202.
2
A protocol for generating a high-quality genome-scale metabolic reconstruction.生成高质量基因组尺度代谢重建的方案。
Nat Protoc. 2010 Jan;5(1):93-121. doi: 10.1038/nprot.2009.203. Epub 2010 Jan 7.
3
Applications of genome-scale metabolic reconstructions.基因组尺度代谢重建的应用。
Mol Syst Biol. 2009;5:320. doi: 10.1038/msb.2009.77. Epub 2009 Nov 3.
4
Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli.基于模型的大肠杆菌生长偶联产物生产潜力评估。
Metab Eng. 2010 May;12(3):173-86. doi: 10.1016/j.ymben.2009.10.003. Epub 2009 Oct 17.
5
WEbcoli: an interactive and asynchronous web application for in silico design and analysis of genome-scale E.coli model.Webcoli：一个用于基于计算机的大规模 E.coli 模型设计和分析的交互式和异步网络应用程序。
Bioinformatics. 2009 Nov 1;25(21):2850-2. doi: 10.1093/bioinformatics/btp496. Epub 2009 Aug 17.
6
Constraints-based genome-scale metabolic simulation for systems metabolic engineering.基于约束的基因组尺度代谢模拟在系统代谢工程中的应用。
Biotechnol Adv. 2009 Nov-Dec;27(6):979-988. doi: 10.1016/j.biotechadv.2009.05.019. Epub 2009 May 20.
7
GrowMatch: an automated method for reconciling in silico/in vivo growth predictions.GrowMatch：一种用于协调计算机模拟/体内生长预测的自动化方法。
PLoS Comput Biol. 2009 Mar;5(3):e1000308. doi: 10.1371/journal.pcbi.1000308. Epub 2009 Mar 13.
8
Reconstruction of biochemical networks in microorganisms.微生物生化网络的重建。
Nat Rev Microbiol. 2009 Feb;7(2):129-43. doi: 10.1038/nrmicro1949. Epub 2008 Dec 31.
9
The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli.利用大肠杆菌进行基因组规模代谢重建的应用范围不断扩大。
Nat Biotechnol. 2008 Jun;26(6):659-67. doi: 10.1038/nbt1401.
10
A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information.针对大肠杆菌K-12 MG1655的全基因组规模代谢重建，该重建考虑了1260个开放阅读框和热力学信息。
Mol Syst Biol. 2007;3:121. doi: 10.1038/msb4100155. Epub 2007 Jun 26.
Zotero 插件