13CFLUX2—high-performance software suite for 13C-metabolic flux analysis

Bioinformatics (Oxford, England) - Tập 29 Số 1 - Trang 143-145 - 2013
Michael Weitzel1, Katharina Nöh1, Tolga Dalman1, Sebastian Niedenführ1, Birgit Stute1, Wolfgang Wiechert1
11 Institute of Bio- and Geosciences, IBG-1: Biotechnology and 2JARA High Performance Computing, Forschungszentrum Jülich GmbH, 52428 Jülich, Germany

Tóm tắt

AbstractSummary:  13C-based metabolic flux analysis (13C-MFA) is the state-of-the-art method to quantitatively determine in vivo metabolic reaction rates in microorganisms. 13CFLUX2 contains all tools for composing flexible computational 13C-MFA workflows to design and evaluate carbon labeling experiments. A specially developed XML language, FluxML, highly efficient data structures and simulation algorithms achieve a maximum of performance and effectiveness. Support of multicore CPUs, as well as compute clusters, enables scalable investigations. 13CFLUX2 outperforms existing tools in terms of universality, flexibility and built-in features. Therewith, 13CFLUX2 paves the way for next-generation high-resolution 13C-MFA applications on the large scale.Availability and implementation: 13CFLUX2 is implemented in C++ (ISO/IEC 14882 standard) with Java and Python add-ons to run under Linux/Unix. A demo version and binaries are available at www.13cflux.net.Contact:  [email protected] or [email protected]Supplementary information:  Supplementary data are available at Bioinformatics online.

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Bioinformatics (Oxford, England)

Tập 29 Số 1

143-145

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