Publication

Heterogeneous, delayed-onset killing by multiple-hitting T cells: Stochastic simulations to assess methods for analysis of imaging data

Although quantitative insights into the killing behaviour of Cytotoxic T Lymphocytes (CTLs) are necessary for the rational design of immune-based therapies, CTL killing function remains insufficiently characterised. One established model of CTL …

Experimental and computational analyses reveal that environmental restrictions shape HIV-1 spread in 3D cultures

Pathogens face varying microenvironments in vivo, but suitable experimental systems and analysis tools to dissect how three-dimensional (3D) tissue environments impact pathogen spread are lacking. Here we develop an Integrative method to Study …

Perspective: The promise of multi-cellular engineered living systems

Recent technological breakthroughs in our ability to derive and differentiate induced pluripotent stem cells, organoid biology, organ-on-chip assays, and 3-D bioprinting have all contributed to a heightened interest in the design, assembly, and …

Morpheus in Bioinformatics

An article on Morpheus is now available as an application note in Bioinformatics. Read the open access paper or see the list of publications.

Morpheus: a user-friendly modeling environment for multiscale and multicellular systems biology

Morpheus is a modeling environment for the simulation and integration of cell-based models with ordinary differential equations and reaction-diffusion systems. It allows rapid development of multiscale models in biological terms and mathematical expressions rather than programming code. Its graphical user interface supports the entire workflow from model construction and simulation to visualization, archiving and batch processing.

Early Embryonic Vascular Patterning by Matrix-Mediated Paracrine Signalling: A Mathematical Model Study

During embryonic vasculogenesis, endothelial precursor cells of mesodermal origin known as angioblasts assemble into a characteristic network pattern. Although a considerable amount of markers and signals involved in this process have been …

A New Mechanism for Collective Migration in Myxococcus xanthus

Myxobacteria exhibit a complex life cycle characterized by a sequence of cell patterns that culminate in the formation of three-dimensional fruiting bodies. This paper provides indications that the specific cell shape of myxobacteria might play an …