The BCL-2 family of proteins controls cell death primarily by direct binding interactions that
regulate mitochondrial outer membrane permeabilization (MOMP) leading to the irreversible …

Abstract Systems biology has experienced dramatic growth in the number, size, and
complexity of computational models. To reproduce simulation results and reuse models …

The human immune system is composed of a distributed network of cells circulating
throughout the body, which must dynamically form physical associations and communicate …

Cancer metastasis is no longer viewed as a linear cascade of events but rather as a series
of concurrent, partially overlapping processes, as successfully metastasizing cells assume …

Behaviours of complex biomolecular systems are often irreducible to the elementary
properties of their individual components. Explanatory and predictive mathematical models …

The FANTOM5 project investigates transcription initiation activities in more than 1,000
human and mouse primary cells, cell lines and tissues using CAGE. Based on manual …

Targeted inhibition of oncogenic pathways can be highly effective in halting the rapid growth
of tumors but often leads to the emergence of slowly dividing persister cells, which constitute …

BioNetGen is an open-source software package for rule-based modeling of complex
biochemical systems. Version 2.2 of the software introduces numerous new features for both …

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 …

The analysis of omic data depends on machine‐readable information about protein
interactions, modifications, and activities as found in protein interaction networks, databases …