Miroslav Kratochvíl

This study measures in vivo enzyme turnover numbers in Vibrio natriegens using multi-omic data fusion, revealing enzymes are 14-fold faster than E. coli and showing machine learning underestimates these kinetics.

The paper introduces FROG analysis to standardize reproducibility assessments of genome-scale metabolic models, resulting in full reproducibility of all tested models.

The paper introduces parallel implementations of the continuous time Boolean model simulator for large CPU clusters and GPU accelerators to handle increased model complexity.

COBREXA.jl is a Julia package for scalable constraint-based metabolic modeling, designed for high-performance computing environments and multi-organism community models.

GigaSOM.jl provides a scalable solution for clustering and visualizing large cytometry datasets, achieving high performance with distributed computing.

EmbedSOM improves high-dimensional cytometry data analysis by providing efficient, scalable visualization of cell populations and transitions without downsampling.