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October 8, 2025npj Systems Biology and ApplicationsOpen Access

Constraint based modeling of drug induced metabolic changes in a cancer cell line

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Authors

XBXavier BenedictoBarcelona Supercomputing CenterÅFÅsmund FlobakSINTEFMPMiguel Ponce-de-LeónBarcelona Supercomputing Center

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Implication

Observational analysis reports metabolic alterations from kinase inhibitors in gastric cancer cells, indicating potential therapeutic vulnerabilities.

Key Points

  • Widespread down-regulation of biosynthetic pathways was observed, particularly impacting amino acid metabolism and nucleotide metabolism.
  • Combination treatments showed strong synergistic effects in the PI3Ki–MEKi condition, emphasizing the role of ornithine and polyamine biosynthesis.
  • The study utilized genome-scale metabolic models and transcriptomic profiling to assess drug-induced metabolic changes effectively.
  • Developing the open-source Python package, MTEApy, contributes to reproducibility and broader use of the TIDE frameworks.

Cite This Study

Benedicto et al. (2025) studied this question.

synapsesocial.com/papers/68e6679587ecc93a24d17448https://doi.org/10.1038/s41540-025-00586-y
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Also Consider

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  1. 1Deciphering molecular mechanisms of synergistic growth reduction in kinase inhibitor combinations2024 · 3 citations
  2. 2Bridging the gap between mechanistic biological models and machine learning surrogates2023 · 75 citations
  3. 3Ornithine and breast cancer: a matched case–control study2020 · 15 citations
  4. 4Functions of Polyamines in Mammals2016 · 740 citations
  5. 5Asparagine, colorectal cancer, and the role of sex, genes, microbes, and diet: A narrative review2022 · 36 citations