ArticlePLoS computational biology2014
Estimating relative changes of metabolic fluxes.
Article in PLoS computational biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Parameter Estimation and Identifiability in Kinetic Flux Profiling Models of Metabolism.Bulletin of mathematical biology · 2024Article
- Parameter Estimation and Identifiability in Kinetic Flux Profiling Models of Metabolism.ArXiv · 2024Article
- Challenges of Spatially Resolved Metabolism in Cancer Research.Metabolites · 2024Review
- Protein turnover models for LC-MS data of heavy water metabolic labeling.Briefings in bioinformatics · 2022Article
- Cellular sensing of extracellular purine nucleosides triggers an innate IFN-β response.Science advances · 2020Article
- Timepoint Selection Strategy for In Vivo Proteome Dynamics from Heavy Water Metabolic Labeling and LC-MS.Journal of proteome research · 2020Article
- Serine synthesis through PHGDH coordinates nucleotide levels by maintaining central carbon metabolism.Nature communications · 2018Article
- Exo-MFA - A 13C metabolic flux analysis framework to dissect tumor microenvironment-secreted exosome contributions towards cancer cell metabolism.Metabolic engineering · 2017Article
- Understanding metabolism with flux analysis: From theory to application.Metabolic engineering · 2017Review
- Strategies for Extending Metabolomics Studies with Stable Isotope Labelling and Fluxomics.Metabolites · 2016Article
- A roadmap for the XCMS family of software solutions in metabolomics.Current opinion in chemical biology · 2016Review
- A roadmap for interpreting (13)C metabolite labeling patterns from cells.Current opinion in biotechnology · 2015Review
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Fluxes are the central trait of metabolism and Kinetic Flux Profiling (KFP) is an effective method of measuring them. To generalize its applicability, we present an extension of the method that estimates the relative changes of fluxes using only relative quantitation of 13C-labeled metabolites. Such features are directly tailored to the more common experiment that performs only relative quantitation and compares fluxes between two conditions. We call our extension rKFP. Moreover, we examine the effects of common missing data and common modeling assumptions on (r)KFP, and provide practical suggestions. We also investigate the selection of measuring times for (r)KFP and provide a simple recipe. We then apply rKFP to 13C-labeled glucose time series data collected from cells under normal and glucose-deprived conditions, estimating the relative flux changes of glycolysis and its branching pathways. We identify an adaptive response in which de novo serine biosynthesis is compromised to maintain the glycolytic flux backbone. Together, these results greatly expand the capabilities of KFP and are suitable for broad biological applications.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.