2012/11/13 by Adriana Compagnoni, Mariangiola Dezani-Ciancaglini, Paola Giannini +3
Biochemistry, Genetics and Molecular Biology · Computer Science · Decision Sciences · Engineering · #DNA and Biological Computing #Modular Robots and Swarm Intelligence #Scientific Computing and Data Management #cs.FL #cs.LO
paper · pdf · doi:10.4204/eptcs.100.7
published as EPTCS 100, 2012, pp. 101-106 · In Proceedings MeCBIC 2012, arXiv:1211.3476
openalex publication_date 2012/11/13 · arxiv created 2012/11/17 · arxiv updated 2012/11/21 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/31
BioScape is a concurrent language motivated by the biological landscapes found at the interface of biology and biomaterials. It has been motivated by the need to model antibacterial surfaces, biofilm formation, and the effect of DNAse in treating and preventing biofilm infections. As its predecessor, SPiM, BioScape has a sequential semantics based on Gillespie's algorithm, and its implementation does not scale beyond 1000 agents. However, in order to model larger and more realistic systems, a semantics that may take advantage of the new multi-core and GPU architectures is needed. This motivates the introduction of parallel semantics, which is the contribution of this paper: Parallel BioScape, an extension with fully parallel semantics.