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CORRECTION article

Front. Microbiol., 30 July 2019
Sec. Microbial Physiology and Metabolism
Volume 10 - 2019 | https://doi.org/10.3389/fmicb.2019.01734

Corrigendum: The Design of FluxML: A Universal Modeling Language for 13C Metabolic Flux Analysis

This article is a correction to:

  1. The Design of FluxML: A Universal Modeling Language for 13C Metabolic Flux Analysis

    1. Read original article
\nMartin Beyß&#x;Martin Beyß1†Salah Azzouzi&#x;Salah Azzouzi1†Michael Weitzel&#x;Michael Weitzel1†Wolfgang Wiechert,&#x;Wolfgang Wiechert1,2‡Katharina Nh &#x;Katharina Nöh1*‡
  • 1Institute of Bio- and Geosciences, IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, Jülich, Germany
  • 2Computational Systems Biotechnology (AVT.CSB), RWTH Aachen University, Aachen, Germany

A Corrigendum on
The Design of FluxML: A Universal Modeling Language for 13C Metabolic Flux Analysis

by Beyß, M., Azzouzi, S., Weitzel, M., Wiechert, W., and Nöh, K. (2019). Front. Microbiol. 10:1022. doi: 10.3389/fmicb.2019.01022

In the original article, Sysmetab was cited by “Mottelet et al. 2017” in Supplementary S1 Table 1.1 and not in the main text of the article. The citation has now been inserted in the section Harnessing the Benefits of FLUXML, sub-section FluxML for Simulator Comparisons, paragraph one:

“From a users' perspective, the lack of abilities to compare and validate numerical results generated by different 13C MFA tools is unsatisfactory. Clearly, a precise and unambiguous representation of a model provides the basis for any of these tasks. Extracting the encoding of a model formulated for one piece of software and transferring it to another format is a step prone to errors that should be subjected to converters. Here, we exemplify a simulator comparison, taking the deterministic forward simulation step with 13CFLUX2 (v2.0) and Sysmetab (v5.1, Mottelet et al., 2017) as representative test case. The comparison is done with a central metabolism model of E. coli contained in the Sysmetab distribution, precisely, a isotopically stationary and non-stationary variant mimicking ILEs with a 3:7 [U-13C]:[1-13C]-glucose mixture. The fmlstats tool reports that the network consists of 51 metabolites and 86 reactions. In total 9 MS measurement groups and one extracellular flux measurement are contained.”

The authors apologize for this error and state that this does not change the scientific conclusions of the article in any way. The original article has been updated.

References

Mottelet, S., Gaullier, G., and Sadaka, G. (2017). Metabolic flux analysis in isotope labeling experiments using the adjoint approach. IEEE ACM Trans. Comput. Biol. Bioinform. 14, 491–497. doi: 10.1109/TCBB.2016.2544299

PubMed Abstract | CrossRef Full Text | Google Scholar

Keywords: 13C metabolic flux analysis, FluxML, machine-readable format, model specification language, computational modeling, reproducible science, data models, model exchange

Citation: Beyß M, Azzouzi S, Weitzel M, Wiechert W and Nöh K (2019) Corrigendum: The Design of FluxML: A Universal Modeling Language for 13C Metabolic Flux Analysis. Front. Microbiol. 10:1734. doi: 10.3389/fmicb.2019.01734

Received: 12 July 2019; Accepted: 15 July 2019;
Published: 30 July 2019.

Approved by:

Frontiers Editorial Office, Frontiers Media SA, Switzerland

Copyright © 2019 Beyß, Azzouzi, Weitzel, Wiechert and Nöh. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

*Correspondence: Katharina Nöh, ay5ub2VoJiN4MDAwNDA7ZnotanVlbGljaC5kZQ==

†These authors have contributed equally to this work

‡These authors have contributed equally to this work

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