ArticlePLoS computational biology2025
Optimization-based framework with flux balance analysis (FBA) and metabolic pathway analysis (MPA) for identifying metabolic objective functions.
Article in PLoS computational biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- Causal AI digital twin for bioprocess bottleneck diagnosis via metabolic flexibility and rigidification maps.iScience · 2026Article
- One-pot bioprocessing: dynamics and opportunities for integrated multiproduct recovery-a review.Bioprocess and biosystems engineering · 2026Review
- Predictive Algal Systems Biology: Integrating Omics, Genome-Scale Metabolic Models, and Machine Learning.Bioengineering (Basel, Switzerland) · 2026Review
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3 authors.
Funding
Abstract
Metabolic network modeling, especially Flux Balance Analysis (FBA), plays a critical role in systems biology by providing insights into cellular behaviors. Although FBA is the main tool for predicting flux distributions, it can face challenges capturing flux variations under different conditions. Selecting an appropriate objective function is therefore important for accurately representing system performance. To address this, we introduce a novel framework (e.g., TIObjFind) that imposes Metabolic Pathway Analysis (MPA) with Flux Balance Analysis (FBA) to analyze adaptive shifts in cellular responses throughout different stages of a biological system. This framework determines Coefficients of Importance (CoIs) that quantify each reaction's contribution to an objective function, aligning optimization results with experimental flux data. By examining Coefficients of Importance, TIObjFind enhances the interpretability of complex metabolic networks and provides insights into adaptive cellular responses.
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