Reference : DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia.

	Document type :	Scientific journals : Article
	Discipline(s) :	Life sciences : Biochemistry, biophysics & molecular biology Engineering, computing & technology : Multidisciplinary, general & others
	Focus Areas :	Systems Biomedicine
	To cite this reference:	http://hdl.handle.net/10993/30383

Title :	DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia.
Language :	English
Author, co-author :	Heirendt, Laurent [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
	Thiele, Ines [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
	Fleming, Ronan MT [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Publication date :	16-Jan-2017
Journal title :	Bioinformatics
Publisher :	Oxford University Press
Peer reviewed :	Yes
Keywords :	[en] Computational modeling ; Flux variability analysis ; Metabolic networks ; Parallel computing
Abstract :	[en] MOTIVATION: Flux balance analysis, and its variants, are widely used methods for predicting steady-state reaction rates in biochemical reaction networks. The exploration of high dimensional networks with such methods is currently hampered by software performance limitations. RESULTS: DistributedFBA.jl is a high-level, high-performance, open-source implementation of flux balance analysis in Julia. It is tailored to solve multiple flux balance analyses on a subset or all the reactions of large and huge-scale networks, on any number of threads or nodes. AVAILABILITY: The code is freely available on github.com/opencobra/COBRA.jl. The documentation can be found at opencobra.github.io/COBRA.jl.
Research centres :	Luxembourg Centre for Systems Biomedicine (LCSB): Systems Biochemistry (Fleming Group) ; Luxembourg Centre for Systems Biomedicine (LCSB): Molecular Systems Physiology (Thiele Group)
Funders :	National Centre of Excellence in Research (NCER) on Parkinson’s disease ; Luxembourg National Research Fund (FNR) ATTRACT program grant (FNR/A12/01) ; U.S. Department of Energy, Offices of Advanced Scientific Computing Research and the Biological and Environmental Research as part of the Scientific Discovery Through Advanced Computing program, grant no. DE-SC0010429
Target :	Researchers ; Professionals ; Students
Permalink :	http://hdl.handle.net/10993/30383
DOI :	10.1093/bioinformatics/btw838
Other URL :	http://www.ncbi.nlm.nih.gov/pubmed/28093405

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	Fulltext file(s): File Commentary Version Size Access Open access DistributedFBA.jl_high-level_high-performance_flux_balance_analysis_in_Julia.pdf Publisher postprint 460.57 kB View/Open Additional material(s): File Commentary Size Access Open access DistributedFBA.jl_high-level_high-performance_flux_balance_analysis_in_Julia_Supplementary_Material.pdf 297.46 kB View/Open

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