Biocellion statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.


Citations per year

Citations chart

Popular tool citations

chevron_left Quantitative kinetic modeling chevron_right
Popular tools chart

Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

Biocellion specifications


Unique identifier OMICS_08774
Name Biocellion
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Medium
Stability Stable
Maintained Yes


Add your version



  • person_outline Biocellion <>

Publications for Biocellion

Biocellion in publications

PMCID: 5863959
PMID: 29565975
DOI: 10.1371/journal.pone.0191089

[…] that the material properties of a biofilm both power and control wrinkle formation within biofilms in response to localized cell death. using an agent-based model and a high-performance platform (biocellion), we built a model that qualitatively reproduced wrinkle formation in biofilms due to cell death. through the use of computational simulations, we determined important relationships […]

PMCID: 5514506
PMID: 28716030
DOI: 10.1186/s12918-017-0443-z

[…] of enhancing anaerobic granulation, such as addition of positively charged ions and particles of polymers into the uasb system [, ]. to converge granulation model with reactor-like environment, a biocellion modelling environment can be used [, ]. possibility to parallelize computation load in biocellion would eliminate the main bottleneck of the cdynomics and allow development of a whole […]

PMCID: 5330541
PMID: 28192427
DOI: 10.1371/journal.pcbi.1005387

[…] challenge is to extend such comparison studies across simulation tools, of which there is an increasing ecosystem, including compucell3d [], morpheus [], episim [], cellsys [], virtualleaf [], biocellion [], biofvm [], lbibcell [] and embryomaker []. we emphasize here the lack of ‘benchmarks’ on which to make such comparisons. we propose that the present study offers four examples […]

PMCID: 4373890
PMID: 25806784
DOI: 10.1371/journal.pone.0122192

[…] of agent-agent and agent-local environment interactions can challenge the parallelization of an abm, and there have been several specialized modeling platforms developed to provide this capability: biocellion [,], flame [,], and repast hpc [,]. however, despite their advantages in terms of lowering barriers to use and implementation on hpc environments, there are potential limitations […]

PMCID: 4385633
PMID: 25874228
DOI: 10.1155/2015/769471

[…] simulation of more complex biomolecular systems. namely, we are investigating the potential of the new distributed environment of mason, the dmason (, and the biocellion framework []., abm is increasingly popular in biology due to its natural ability to represent multiple scales of system decomposition, intertwine complicated behaviours, and deal […]

To access a full list of publications, you will need to upgrade to our premium service.

Biocellion institution(s)
Computational Biology and Bioinformatics Group, High-performance Computing Group, Pacific Northwest National Laboratory, Richland, WA, USA, Department of Computer Science, Utah State University, Logan, UT, USA and Institute for Systems Biology, Seattle, WA, USA

Biocellion reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Biocellion