Browse our latest Computational and Systems Biology articles

Systematic simulations reveal how growth feedback undermines the stability of adaptive gene circuits in a topology-dependent manner.

The combination of growth optimization and cell heterogeneity enables a quantitative explanation of overflow metabolism in microbes and the classical Warburg effect in cancer cells, resolving this long-standing puzzle.

Drug synergy Interaction Prediction improves personalized drug synergy prediction by utilizing drug-specific pathway activation scores to predict personalized drug synergy and reveals mechanistic pathways underlying synergistic effects.

New protein-protein docking algorithm combining deep learning (AlphaFold2) and physics (Rosetta and enhanced sampling) achieves high success rates.

A computational study reveals that the kinetic models of Escherichia coli metabolism show strong responsiveness to perturbations and that it originates from cofactor dynamics and network sparsity.

MorphoCellSorter is a versatile, user-friendly tool that automates microglial morphology ranking, enabling standardized, reproducible analysis across diverse models, imaging techniques, and conditions using principal component analysis and Andrews plots.

Higher biosynthetic capacity of gut microbes in individuals diagnosed with noncommunicable diseases or taking antibiotics suggests that diversity loss and 'dysbiosis' result from microbiome restructuring in response to ecosystem disruption.

A model that simulates realistic fly walking uses an anatomically-inspired layered architecture to achieve robust walking, quantifying the tolerance of this circuit to sensorimotor delays.