Brett G Olivier
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Explore the profile of Brett G Olivier including associated specialties, affiliations and a list of published articles.
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37
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1377
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Recent Articles
1.
Sauro H, Agmon E, Blinov M, Gennari J, Hellerstein J, Heydarabadipour A, et al.
ArXiv
. 2025 Mar;
PMID: 40034129
Guidelines for managing scientific data have been established under the FAIR principles requiring that data be Findable, Accessible, Interoperable, and Reusable. In many scientific disciplines, especially computational biology, both data...
2.
BioSimulators: a central registry of simulation engines and services for recommending specific tools
Shaikh B, Smith L, Vasilescu D, Marupilla G, Wilson M, Agmon E, et al.
Nucleic Acids Res
. 2022 May;
50(W1):W108-W114.
PMID: 35524558
Computational models have great potential to accelerate bioscience, bioengineering, and medicine. However, it remains challenging to reproduce and reuse simulations, in part, because the numerous formats and methods for simulating...
3.
Loghmani S, Veith N, Sahle S, Bergmann F, Olivier B, Kummer U
Metabolites
. 2022 Jan;
12(1).
PMID: 35050165
Genome-scale metabolic models are frequently used in computational biology. They offer an integrative view on the metabolic network of an organism without the need to know kinetic information in detail....
4.
Grigaitis P, Olivier B, Fiedler T, Teusink B, Kummer U, Veith N
J Biotechnol
. 2020 Dec;
327:54-63.
PMID: 33309962
In-depth understanding of microbial growth is crucial for the development of new advances in biotechnology and for combating microbial pathogens. Condition-specific proteome expression is central to microbial physiology and growth....
5.
Keating S, Waltemath D, Konig M, Zhang F, Drager A, Chaouiya C, et al.
Mol Syst Biol
. 2020 Aug;
16(8):e9110.
PMID: 32845085
Systems biology has experienced dramatic growth in the number, size, and complexity of computational models. To reproduce simulation results and reuse models, researchers must exchange unambiguous model descriptions. We review...
6.
Lieven C, Beber M, Olivier B, Bergmann F, Ataman M, Babaei P, et al.
Nat Biotechnol
. 2020 Apr;
38(4):504.
PMID: 32265554
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
7.
Lieven C, Beber M, Olivier B, Bergmann F, Ataman M, Babaei P, et al.
Nat Biotechnol
. 2020 Mar;
38(3):272-276.
PMID: 32123384
No abstract available.
8.
Mendoza S, Olivier B, Molenaar D, Teusink B
Genome Biol
. 2019 Aug;
20(1):158.
PMID: 31391098
Background: Several genome-scale metabolic reconstruction software platforms have been developed and are being continuously updated. These tools have been widely applied to reconstruct metabolic models for hundreds of microorganisms ranging...
9.
Hucka M, Bergmann F, Chaouiya C, Drager A, Hoops S, Keating S, et al.
J Integr Bioinform
. 2019 Jun;
16(2).
PMID: 31219795
Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in...
10.
Neal M, Konig M, Nickerson D, Misirli G, Kalbasi R, Drager A, et al.
Brief Bioinform
. 2018 Nov;
20(2):540-550.
PMID: 30462164
Life science researchers use computational models to articulate and test hypotheses about the behavior of biological systems. Semantic annotation is a critical component for enhancing the interoperability and reusability of...