skip to main content
Idioma:

Biocellion: accelerating computer simulation of multicellular biological system models

Kang, Seunghwa ; Kahan, Simon ; McDermott, Jason ; Flann, Nicholas ; Shmulevich, Ilya

Bioinformatics (Oxford, England), 2014-11, Vol.30 (21), p.3101-3108 [Periódico revisado por pares]

England: Oxford University Press

Texto completo disponível

Citações Citado por
  • Título:
    Biocellion: accelerating computer simulation of multicellular biological system models
  • Autor: Kang, Seunghwa ; Kahan, Simon ; McDermott, Jason ; Flann, Nicholas ; Shmulevich, Ilya
  • Assuntos: Algorithms ; Bacteria - enzymology ; Cell Adhesion ; Computational Biology ; Computer Simulation ; high-performance computing ; MATHEMATICS AND COMPUTING ; Microbial Interactions ; modeling ; Models, Biological ; multicellular biological system ; Original Papers ; simulation ; Software ; Soil Microbiology ; systems biology ; Yeasts - physiology
  • É parte de: Bioinformatics (Oxford, England), 2014-11, Vol.30 (21), p.3101-3108
  • Notas: ObjectType-Article-1
    SourceType-Scholarly Journals-1
    ObjectType-Feature-2
    content type line 23
    USDOE
    AC05-76RL01830
    PNNL-SA-99077
    Associate Editor: Jonathan Wren
  • Descrição: Biological system behaviors are often the outcome of complex interactions among a large number of cells and their biotic and abiotic environment. Computational biologists attempt to understand, predict and manipulate biological system behavior through mathematical modeling and computer simulation. Discrete agent-based modeling (in combination with high-resolution grids to model the extracellular environment) is a popular approach for building biological system models. However, the computational complexity of this approach forces computational biologists to resort to coarser resolution approaches to simulate large biological systems. High-performance parallel computers have the potential to address the computing challenge, but writing efficient software for parallel computers is difficult and time-consuming. We have developed Biocellion, a high-performance software framework, to solve this computing challenge using parallel computers. To support a wide range of multicellular biological system models, Biocellion asks users to provide their model specifics by filling the function body of pre-defined model routines. Using Biocellion, modelers without parallel computing expertise can efficiently exploit parallel computers with less effort than writing sequential programs from scratch. We simulate cell sorting, microbial patterning and a bacterial system in soil aggregate as case studies. Biocellion runs on x86 compatible systems with the 64 bit Linux operating system and is freely available for academic use. Visit http://biocellion.com for additional information.
  • Editor: England: Oxford University Press
  • Idioma: Inglês
Links
Voltar para lista de resultados

  • Realização: ABCD-USP USP   Logos de Redes Sociais: Freepik

Buscando em bases de dados remotas. Favor aguardar.