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

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. 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. 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.
Authors:
 [1] ;  [1] ;  [1]
  1. University of Luxembourg, Esch-sur-Alzette (Luxembourg). Luxembourg Centre for Systems Biomedicine
Publication Date:
Grant/Contract Number:
SC0010429
Type:
Accepted Manuscript
Journal Name:
Bioinformatics
Additional Journal Information:
Journal Volume: 33; Journal Issue: 9; Journal ID: ISSN 1367-4803
Publisher:
Oxford University Press
Research Org:
University of Luxembourg, Esch-sur-Alzette (Luxembourg)
Sponsoring Org:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23). Biological Systems Science Division; USDOE Office of Science (SC), Advanced Scientific Computing Research (ASCR) (SC-21)
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 97 MATHEMATICS AND COMPUTING
OSTI Identifier:
1424909

Heirendt, Laurent, Thiele, Ines, and Fleming, Ronan M. T.. DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia. United States: N. p., Web. doi:10.1093/bioinformatics/btw838.
Heirendt, Laurent, Thiele, Ines, & Fleming, Ronan M. T.. DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia. United States. doi:10.1093/bioinformatics/btw838.
Heirendt, Laurent, Thiele, Ines, and Fleming, Ronan M. T.. 2017. "DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia". United States. doi:10.1093/bioinformatics/btw838. https://www.osti.gov/servlets/purl/1424909.
@article{osti_1424909,
title = {DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia},
author = {Heirendt, Laurent and Thiele, Ines and Fleming, Ronan M. T.},
abstractNote = {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. 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. 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.},
doi = {10.1093/bioinformatics/btw838},
journal = {Bioinformatics},
number = 9,
volume = 33,
place = {United States},
year = {2017},
month = {1}
}