Z. Nikoloski

The ModelSEED Biochemistry Database, 2026 update: grading multi-source thermodynamics

Machine learning for mechanistic modeling of plant metabolic pathways.

It is argued that the recent advances in artificial intelligence offer the means for efficient model parameterization while strategically guiding the use of resources for data generation to increase precision of parameter values.

A hybrid machine learning and enzyme-constrained metabolic model for ab initio prediction of proteome reallocation

The Hybrid Transcription-Translation framework is developed, combining multivariate adaptive regression splines (MARS) with enzyme-constrained metabolic models by enforcing an 80S ribosome integrity constraint, offering a powerful predictive tool to navigate metabolic trade-offs and guide rational strain design without...