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

Laurent Heirendt; Ines Thiele; Ronan M.T. Fleming

doi:10.1093/bioinformatics/btw838

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

Laurent Heirendt, Ines Thiele, Ronan M.T. Fleming

University of Luxembourg

Research output: Contribution to a Journal (Peer & Non Peer) › Article › peer-review

25 Citations (Scopus)

Abstract

Motivation: Flux balance analysis and its variants are widely used methods for predicting steadystate 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.

Original language	English
Pages (from-to)	1421-1423
Number of pages	3
Journal	Bioinformatics
Volume	33
Issue number	9
DOIs	https://doi.org/10.1093/bioinformatics/btw838
Publication status	Published - 1 May 2017
Externally published	Yes

Access to Document

10.1093/bioinformatics/btw838

Cite this

@article{0d31ebe94fb841f4ad13381a4dd5b206,

title = "DistributedFBA.jl: High-level, high-performance flux balance analysis in Julia",

abstract = "Motivation: Flux balance analysis and its variants are widely used methods for predicting steadystate 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.",

author = "Laurent Heirendt and Ines Thiele and Fleming, \{Ronan M.T.\}",

note = "Publisher Copyright: {\textcopyright} The Author 2017. Published by Oxford University Press.",

year = "2017",

month = may,

day = "1",

doi = "10.1093/bioinformatics/btw838",

language = "English",

volume = "33",

pages = "1421--1423",

journal = "Bioinformatics",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "9",

}

TY - JOUR

T1 - DistributedFBA.jl

T2 - High-level, high-performance flux balance analysis in Julia

AU - Heirendt, Laurent

AU - Thiele, Ines

AU - Fleming, Ronan M.T.

PY - 2017/5/1

Y1 - 2017/5/1

N2 - Motivation: Flux balance analysis and its variants are widely used methods for predicting steadystate 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.

AB - Motivation: Flux balance analysis and its variants are widely used methods for predicting steadystate 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.

UR - http://www.scopus.com/inward/record.url?scp=85019711682&partnerID=8YFLogxK

U2 - 10.1093/bioinformatics/btw838

DO - 10.1093/bioinformatics/btw838

M3 - Article

SN - 1367-4803

VL - 33

SP - 1421

EP - 1423

JO - Bioinformatics

JF - Bioinformatics

IS - 9

ER -

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

Abstract

Access to Document

Other files and links

Fingerprint

Cite this