BioNetGen 2.2: advances in rule-based modeling

被引：143

作者：

Harris, Leonard A. ^{[1
,2
]}

Hogg, Justin S. ^{[1
]}

Tapia, Jose-Juan ^{[1
]}

Sekar, John A. P. ^{[1
]}

Gupta, Sanjana ^{[1
]}

Korsunsky, Ilya ^{[1
,3
,4
]}

Arora, Arshi ^{[1
,5
]}

Barua, Dipak ^{[1
,6
]}

Sheehan, Robert P. ^{[1
]}

Faeder, James R. ^{[1
]}

机构：

[1] Univ Pittsburgh, Sch Med, Dept Computat & Syst Biol, Pittsburgh, PA 15260 USA

[2] Vanderbilt Univ, Sch Med, Dept Canc Biol, Nashville, TN 37212 USA

[3] NYU, Courant Inst Math Sci, Dept Comp Sci, New York, NY 10012 USA

[4] Feinstein Inst Med Res, Manhasset, NY 11030 USA

[5] Mem Sloan Kettering Canc Ctr, Dept Epidemiol & Biostat, 1275 York Ave, New York, NY 10021 USA

[6] Missouri Univ Sci & Technol, Dept Chem & Biochem Engn, Rolla, MO 65409 USA

来源：

BIOINFORMATICS | 2016年 / 32卷 / 21期

关键词：

SIMULATION; SYSTEMS; TOOL;

D O I：

10.1093/bioinformatics/btw469

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

BioNetGen is an open-source software package for rule-based modeling of complex biochemical systems. Version 2.2 of the software introduces numerous new features for both model specification and simulation. Here, we report on these additions, discussing how they facilitate the construction, simulation and analysis of larger and more complex models than previously possible. Availability and Implementation: Stable BioNetGen releases (Linux, Mac OS/X and Windows), with documentation, are available at http://bionetgen.org. Source code is available at http://github.com/RuleWorld/bionetgen. Contact: bionetgen. help@gmail.com Supplementary information: Supplementary data are available at Bioinformatics online.

引用

页码：3366 / 3368

页数：3

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