Research Articles
Validating FBA Predictions with 13C Labeling Data: A Framework for Enhanced Confidence in Metabolic Models
This article provides a comprehensive guide for researchers and scientists on validating Flux Balance Analysis (FBA) predictions against experimental 13C metabolic flux analysis (13C-MFA) data.
13C-MFA vs. Flux Balance Analysis: A Comparative Guide to Predictive Accuracy in Metabolic Research
This article provides a comprehensive comparison of two cornerstone methods in metabolic analysis: 13C-Metabolic Flux Analysis (13C-MFA) and Flux Balance Analysis (FBA).
Beyond FBA: Next-Generation Approaches for Accurate Quantitative Phenotype Prediction
Flux Balance Analysis (FBA) has long been a cornerstone for predicting metabolic phenotypes, yet its quantitative accuracy is limited by assumptions like static objective functions and the omission of proteomic...
Navigating Alternative Optimal Solutions in Flux Balance Analysis: From Foundational Concepts to Advanced Validation
Flux Balance Analysis (FBA) is a cornerstone of constraint-based metabolic modeling, but its predictions are often non-unique, with numerous alternative optimal solutions yielding the same objective value.
Gap Filling in Metabolic Networks: From Foundational Concepts to Advanced AI Applications
This article provides a comprehensive overview of gap-filling strategies in genome-scale metabolic model (GEM) reconstruction, a critical process for converting genomic information into predictive computational frameworks.
Correcting Mass Isotopomer Distribution (MID) Measurement Errors: A Comprehensive Guide for Accurate Metabolic Flux Analysis
This article provides a comprehensive guide for researchers and drug development professionals on correcting for errors in Mass Isotopomer Distribution (MID) measurements, a critical component of stable isotope labeling experiments...
Advanced Strategies for Quantifying Glycolytic and Pentose Phosphate Pathway Fluxes in Biomedical Research
This article provides a comprehensive guide for researchers and drug development professionals on improving the precision of glycolytic and pentose phosphate pathway (PPP) flux measurements.
Quantifying Uncertainty: Statistical Methods for Robust Flux Estimation in Drug Discovery and Biomedical Research
Accurate quantification of flux uncertainty is critical for validating therapeutic targets, optimizing microbial cell factories, and ensuring the reliability of metabolic models in biomedical research.
Strategies for Reducing Flux Bound Uncertainty in Metabolic Models: From Foundational Concepts to Clinical Applications
Flux bound uncertainty remains a significant challenge in genome-scale metabolic models (GEMs), limiting their predictive accuracy and application in biomedical research and drug development.
Eliminating Thermodynamically Infeasible Loops: A Guide to Accurate Metabolic Flux Prediction for Biomedical Research
Thermodynamically infeasible cycles (TICs) in metabolic models create significant challenges, limiting the predictive accuracy of flux distributions essential for understanding cellular behavior and optimizing bioprocesses like pharmaceutical production.