The aging process is driven at the cellular level by random molecular damage that slowly
accumulates with age. Although cells possess mechanisms to repair or remove damage …

Computational modelling has become increasingly common in life science research. To
provide a platform to support universal sharing, easy accessibility and model reproducibility …

Many multicellular systems problems can only be understood by studying how cells move,
grow, divide, interact, and die. Tissue-scale dynamics emerge from systems of many …

Like many scientific disciplines, dynamical biochemical modeling is hindered by
irreproducible results. This limits the utility of biochemical models by making them difficult to …

Here we present Tellurium, a Python-based environment for model building, simulation, and
analysis that facilitates reproducibility of models in systems and synthetic biology. Tellurium …

A challenge in solving the genotype-to-phenotype relationship is to predict a cell's
metabolome, believed to correlate poorly with gene expression. Using comparative …

Ordinary differential equation (ODE) models are a key tool to understand complex
mechanisms in systems biology. These models are studied using various approaches …

The 2019 novel coronavirus, SARS-CoV-2, is an emerging pathogen of critical significance
to international public health. Knowledge of the interplay between molecular-scale virus …

Motivation This article presents libRoadRunner 2.0, an extensible, high-performance, cross-
platform, open-source software library for the simulation and analysis of models expressed …

We present an integrated framework for enabling dynamic exploration of design spaces for
cancer immunotherapies with detailed dynamical simulation models on high-performance …