A Comparison of Network Characteristics in Metabolic and Manufacturing Systems. - Till Becker; Mirja Meyer; Moritz Emanuel Beber; Katja Windt; Marc-Thorsten Hütt (LDIC, 2012)

How do production systems in biological cells maintain their function in changing environments? - Moritz Emanuel Beber; Marc-Thorsten Hütt (Logist. Res., 2012)

Network Heterogeneity and Node Capacity lead to Heterogeneous Scaling of fluctuations in Random Walks on graphs. - Kosmas Kosmidis; Moritz Emanuel Beber; Marc-Thorsten Hütt (Adv. Complex Syst., 2015)

Effect of database drift on network topology and enrichment analyses: a case study for RegulonDB. - Moritz Emanuel Beber; Georgi Muskhelishvili; Marc-Thorsten Hütt (Database J. Biol. Databases Curation, 2016)

ToxDB: pathway-level interpretation of drug-treatment data. - Christopher Hardt; Moritz Emanuel Beber; Axel Rasche; Atanas Kamburov; Dennie G. A. J. Hebels; Jos C. S. Kleinjans; Ralf Herwig (Database J. Biol. Databases Curation, 2016)

dfba: Software for efficient simulation of dynamic flux-balance analysis models in Python. - David Tourigny; Jorge Muriel; Moritz Emanuel Beber (J. Open Source Softw., 2020)

multiTFA: a Python package for multi-variate thermodynamics-based flux analysis. - Vishnuvardhan Mahamkali; Tim McCubbin; Moritz Emanuel Beber; Elad Noor; Esteban Marcellin; Lars Keld Nielsen (Bioinform., 2021)

The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes. - Samuel M. D. Seaver; Filipe Liu; Qizhi Zhang; James G. Jeffryes; José P. Faria; Janaka N. Edirisinghe; Michael B. Mundy; Nicholas Chia; Elad Noor; Moritz Emanuel Beber; Aaron A. Best; Matthew DeJongh; et al. (Nucleic Acids Res., 2021)

The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes (Corrigendum). - Samuel M. D. Seaver; Filipe Liu; Qizhi Zhang; James G. Jeffryes; José P. Faria; Janaka N. Edirisinghe; Michael B. Mundy; Nicholas Chia; Elad Noor; Moritz Emanuel Beber; Aaron A. Best; Matthew DeJongh; et al. (Nucleic Acids Res., 2021)

BioSimulators: a central registry of simulation engines and services for recommending specific tools. - Bilal Shaikh; Lucian P. Smith; Dan Vasilescu; Gnaneswara Marupilla; Michael Wilson; Eran Agmon; Henry Agnew; Steven S. Andrews; Azraf Anwar; Moritz E. Beber; Frank T. Bergmann; David Brooks 006; et al. (CoRR, 2022)

eQuilibrator 3.0: a database solution for thermodynamic constant estimation. - Moritz E. Beber; Mattia G. Gollub; Dana Mozaffari; Kevin M. Shebek; Avi I. Flamholz; Ron Milo; Elad Noor (Nucleic Acids Res., 2022)

BioSimulators: a central registry of simulation engines and services for recommending specific tools. - Bilal Shaikh; Lucian P. Smith; Dan Vasilescu; Gnaneswara Marupilla; Michael Wilson; Eran Agmon; Henry Agnew; Steven S. Andrews; Azraf Anwar; Moritz E. Beber; Frank T. Bergmann; David Brooks 006; et al. (Nucleic Acids Res., 2022)

TAXPASTA: TAXonomic Profile Aggregation and STAndardisation. - Moritz E. Beber; Maxime Borry; Sofia Stamouli; James A. Fellows Yates (J. Open Source Softw., 2023)