Wolfram Liebermeister

Publications

Chapitre d'ouvrage (6)

Cell metabolism Hadrien Delattre,Wolfram Liebermeister,Elad Noor,Herbert Sauro,Orkun Soyeret al. Economic Principles in Cell Biology, The Economic Cell Collective, 2025, ⟨10.5281/zenodo.8156823⟩ Chapitre d'ouvrage hal-05195020v1
Metabolic flux distributions Daan de Groot,Wolfram Liebermeister,Maxime Mahout,Stefan Müller,David Ruckerbaueret al. Economic Principles in Cell Biology, 2025, ⟨10.5281/zenodo.8156386⟩ Chapitre d'ouvrage hal-05195021v1
Optimization of metabolic states Andreas Kremling,Wolfram Liebermeister,Elad Noor,Meike Wortel The Economic Cell Collective. Economic Principles in Cell Biology, The Economic Cell Collective, 2023, ⟨10.5281/zenodo.8164468⟩ Chapitre d'ouvrage hal-04172128v2
The enzyme cost of metabolic fluxes Wolfram Liebermeister,Elad Noor The Economic Cell Collective. Economic Principles in Cell Biology, The Economic Cell Collective, 2023, ⟨10.5281/zenodo.8154381⟩ Chapitre d'ouvrage hal-04172121v2
Resource allocation in complex cell models Hugo Dourado,Anne Goelzer,Pranas Grigaitis,Wolfram Liebermeister,Elad Noor The Economic Cell Collective. Economic Principles in Cell Biology, The Economic Cell Collective, 2023, ⟨10.5281/zenodo.8156647⟩ Chapitre d'ouvrage hal-04172144v2
Traces and Frames Wolfram Liebermeister,Tyyne Claudia Pollmann tracelation, Archives Book, 2017, 978-3-943620-61-0 Chapitre d'ouvrage hal-02786339v1

Autre publication scientifique (3)

Balancing Metabolic Homeostasis and Enzyme Cost with Multi-Objective Evolutionary Algorithms Arthur Lequertier,Alberto Tonda,Wolfram Liebermeister 2025, pp.855-858. ⟨10.1145/3712255.3726597⟩ Autre publication scientifique hal-05220393v1
Inferring Reaction Elasticities from Metabolic Correlations in Cells Through Multi-objective Evolutionary Optimization Arthur Lequertier,Wolfram Liebermeister,Alberto Tonda 2025, pp.323-337. ⟨10.1007/978-3-031-90062-4_20⟩ Autre publication scientifique hal-05056748v1
How mammals adapt their breath to body activity – and how this depends on body size Wolfram Liebermeister 2021, pp.100005. ⟨10.24072/pci.mcb.100005⟩ Autre publication scientifique hal-03336970v1

Poster de conférence (7)

Inferring Reaction Elasticities from Metabolic Correlations in Cells through Multi-objective Evolutionary Optimization Arthur Lequertier,Wolfram Liebermeister,Alberto Tonda EvoStar 2025, Apr 2025, Trieste, Italy Poster de conférence hal-05085279v1
Balancing Metabolic Homeostasis and Enzyme Cost with Multi-Objective Evolutionary Algorithms Arthur Lequertier,Wolfram Liebermeister,Alberto Tonda GECCO 2025, Jul 2025, Malaga, Espagne, Spain. pp.1 Poster de conférence hal-05195025v1
Information Transmission Through State Perturbations in Metabolic Networks Arthur Lequertier,Wolfram Liebermeister ECMTB 2024, Jul 2024, Toledo (ESP), Spain Poster de conférence hal-05085176v1
Complexity Reduction by Symmetry: Uncovering the minimal regulatory network for logical computation in bacteria Luis A Álvarez-García,Wolfram Liebermeister,Ian Leifer,Hernán A. Makse NetSci 2024, Jun 2024, Québec City, France Poster de conférence hal-05195042v1
Information transmission through state perturbations in metabolic networks Arthur Lequertier,Wolfram Liebermeister ISMB-ECCB 2023, Jul 2023, Lyon, France. Poster de conférence hal-04379407v1
rbatools -a programming interface to cellular resource allocation modelling with Resource Balance Analysis Oliver Bodeit,Wolfram Liebermeister,Anne Goelzer Metabolic Pathway Analysis, Aug 2021, Knoxville, United States Poster de conférence hal-04426315v1
Enzyme economy in metabolic networks Wolfram Liebermeister ICSB 2018, Oct 2018, Lyon, France. , 2018 Poster de conférence hal-02786771v1

Ouvrages (1)

Economic Principles in Cell Biology Agustín G. Yabo,Andrea de Martino,Andrea Weisse,Andreas Kremling,Anne Goelzeret al. The Economic Cell Collective, pp.1-285, 2025, ⟨10.5281/zenodo.8156386⟩ Ouvrages hal-04172118v2

Pré-publication, Document de travail (12)

Growth Mechanics and the emergence of metabolic oscillations in growing cells Hugo Dourado,Chilperic Armel Foko Kuate,Wolfram Liebermeister,Martin Lercher 2025 Pré-publication, Document de travail hal-05134103v1
Optimal enzyme profiles in unbranched metabolic pathways Elad Noor,Wolfram Liebermeister 2023 Pré-publication, Document de travail hal-04149785v1
Fibration symmetry uncovers minimal regulatory networks for logical computation in bacteria Luis A. Álvarez-García,Wolfram Liebermeister,Ian Leifer,Hernán A. Makse 2023 Pré-publication, Document de travail hal-04247231v1
Artificial Metabolic Networks: enabling neural computation with metabolic networks Léon Faure,Bastien Mollet,Wolfram Liebermeister,Jean-Loup Faulon 2022 Pré-publication, Document de travail hal-03613655v2
BioSimulators: a central registry of simulation engines and services for recommending specific tools Bilal Shaikh,Lucian Smith,Dan Vasilescu,Gnaneswara Marupilla,Michael Wilsonet al. 2022 Pré-publication, Document de travail hal-03613651v1
Structural thermokinetic modelling Wolfram Liebermeister 2022 Pré-publication, Document de travail hal-03613706v1
Growth Mechanics: General principles of optimal cellular resource allocation in balanced growth Hugo Dourado,Wolfram Liebermeister,Oliver Ebenhoeh,Martin Lercher 2022 Pré-publication, Document de travail hal-03834977v1
ObjTables: structured spreadsheets that promote data quality, reuse, and integration Jonathan R Karr,Wolfram Liebermeister,Arthur P Goldberg,John a P Sekar,Bilal Shaikh 2021 Pré-publication, Document de travail hal-03337093v1
Model balancing: consistent in-vivo kinetic constants and metabolic states obtained by convex optimisation Wolfram Liebermeister 2019 Pré-publication, Document de travail (preprint/prepublication) hal-02437604v1
Flux cost functions and the choice of metabolic fluxes Wolfram Liebermeister 2018 Pré-publication, Document de travail (preprint/prepublication) hal-02790668v1
Optimal metabolic states in cells Wolfram Liebermeister 2018 Pré-publication, Document de travail (preprint/prepublication) hal-02790125v1
The value structure of metabolic states Wolfram Liebermeister 2018 Pré-publication, Document de travail (preprint/prepublication) hal-02791023v1

Article dans une revue (18)

A compact model of Escherichia coli core and biosynthetic metabolism Marco Corrao,Hai He,Wolfram Liebermeister,Elad Noor,Arren Bar-Even PLoS Computational Biology, 2025, 21 (10), pp.e1013564. ⟨10.1371/journal.pcbi.1013564⟩ Article dans une revue hal-05056734v2
Complexity reduction by symmetry: Uncovering the minimal regulatory network for logical computation in bacteria Luis A Álvarez-García,Wolfram Liebermeister,Ian Leifer,Hernán A Makse PLoS Computational Biology, 2025, 21 (4), pp.e1013005. ⟨10.1371/journal.pcbi.1013005⟩ Article dans une revue hal-05056721v1
Optimal enzyme profiles in unbranched metabolic pathways Elad Noor,Wolfram Liebermeister Interface Focus, 2024, 14, pp.20230029. ⟨10.1098/rsfs.2023.0029⟩ Article dans une revue hal-04448194v1
A neural-mechanistic hybrid approach improving the predictive power of genome-scale metabolic models Léon Faure,Bastien Mollet,Wolfram Liebermeister,Jean-Loup Faulon Nature Communications, 2023, 14, pp.4669. ⟨10.1038/s41467-023-40380-0⟩ Article dans une revue hal-04178761v1
Mathematical properties of optimal fluxes in cellular reaction networks at balanced growth Hugo Dourado,Wolfram Liebermeister,Oliver Ebenhöh,Martin J Lercher PLoS Computational Biology, 2023, 19 (6), pp.e1011156. ⟨10.1371/journal.pcbi.1011156⟩ Article dans une revue hal-04131693v1
RBAtools: a programming interface for Resource Balance Analysis models Oliver Bodeit,Inès Ben Samir,Jonathan R Karr,Anne Goelzer,Wolfram Liebermeister Bioinformatics Advances, 2023, pp.1-4. ⟨10.1093/bioadv/vbad056⟩ Article dans une revue hal-04093676v1
Structural thermokinetic modelling Wolfram Liebermeister Metabolites, 2022, 12 (5), pp.1-53. ⟨10.3390/metabo12050434⟩ Article dans une revue hal-03666375v1
Model Balancing: A Search for In-Vivo Kinetic Constants and Consistent Metabolic States Wolfram Liebermeister,Elad Noor Metabolites, 2021, 11 (749), pp.1-19. ⟨10.3390/metabo11110749⟩ Article dans une revue hal-03410872v1
SBML Level 3: an extensible format for the exchange and reuse of biological models Sarah Keating,Frank Bergmann,Tomáš Helikar,Rahuman Malik‐sheriff,Ion Moraruet al. Molecular Systems Biology, 2020, 16 (8), pp.1-21. ⟨10.15252/msb.20199110⟩ Article dans une revue (article de synthèse) hal-02924909v1
Clb3-centered regulations are recurrent across distinct parameter regions in minimal autonomous cell cycle oscillator designs Thierry D G A Mondeel,Oleksandr Ivanov,Hans V Westerhoff,Wolfram Liebermeister,Matteo Barberis npj Systems Biology and Applications, 2020, ⟨10.1038/s41540-020-0125-0⟩ Article dans une revue hal-02538622v1
Parameter balancing: consistent parameter sets for kinetic metabolic models Timo Lubitz,Wolfram Liebermeister Bioinformatics, 2019, 35 (19), pp.1-2. ⟨10.1093/bioinformatics/btz129⟩ Article dans une revue hal-02273374v1
Automated generation of bacterial resource allocation models Ana Bulovic,Stéphan Fischer,Marc Dinh,Felipe Golib,Wolfram Liebermeisteret al. Metabolic Engineering, 2019, 55, pp.12-22. ⟨10.1016/j.ymben.2019.06.001⟩ Article dans une revue hal-02623933v1
Metabolite–Enzyme Coevolution: From Single Enzymes to Metabolic Pathways and Networks Lianet Noda-Garcia,Dan S. Tawfik,Wolfram Liebermeister Annual Review of Biochemistry, 2018, 87 (1), pp.187-216. ⟨10.1146/annurev-biochem-062917-012023⟩ Article dans une revue (article de synthèse) hal-02020715v1
Metabolic enzyme cost explains variable trade-offs between microbial growth rate and yield Meike T. Wortel,Elad Noor,Michael Ferris,Frank J. Bruggeman,Wolfram Liebermeister PLoS Computational Biology, 2018, 14 (2), 21 p. ⟨10.1371/journal.pcbi.1006010⟩ Article dans une revue hal-02625591v1
Toward Community Standards and Software for Whole-Cell Modeling Dagmar Waltemath,Jonathan Karr,Frank Bergmann,Vijayalakshmi Chelliah,Michael Huckaet al. IEEE Transactions on Biomedical Engineering, 2016, 63 (10), pp.2007-2014. ⟨10.1109/TBME.2016.2560762⟩ Article dans une revue hal-04361601v1
Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis Pierre P. Nicolas,Ulrike U. Mäder,Etienne Dervyn,Tatiana Rochat,Aurelie A. Leducet al. Science, 2012, 335 (6072), pp.1103-1106. ⟨10.1126/science.1206848⟩ Article dans une revue hal-01000245v1
Condition-Dependent Transcriptome Reveals High-Level Regulatory Architecture in Bacillus subtilis P. Nicolas,U. Mader,Etienne Dervyn,T. Rochat,A. Leducet al. Science, 2012, 335 (6072), pp.1103-1106. ⟨10.1126/science.1206848⟩ Article dans une revue hal-03343060v1
Global Network Reorganization During Dynamic Adaptations of Bacillus subtilis Metabolism Joerg Martin Buescher,Wolfram Liebermeister,Matthieu Jules,Markus Uhr,Jan Muntelet al. Science, 2012, 335 (6072), pp. 1099-1103. ⟨10.1126/science.1206871⟩ Article dans une revue hal-03968015v1

Logiciel (4)

Artificial Metabolic Networks - Release Léon Faure,Bastien Mollet,Wolfram Liebermeister,Jean-Loup Faulon 2022, ⟨swh:1:dir:24e921bcc4d37caa4e0d275b9c4beae362945150;origin=https://hal.archives-ouvertes.fr/hal-05509239;visit=swh:1:snp:d30db40ea555413eb36ef565f5c92e62687bf901;anchor=swh:1:rel:b959c97c859ad2cc20ffffac1069b73e69c890b8;path=/⟩ Logiciel hal-05509239v1
SBtab: Table format for systems biology Wolfram Liebermeister,Timo Lubitz 2019 Logiciel hal-02786179v1
Economic principles in cell metabolism Wolfram Liebermeister 2019 Logiciel hal-02786186v1
Parameter balancing for kinetic metabolic models Wolfram Liebermeister,Timo Lubitz 2019 Logiciel hal-02786178v1

Communication dans un congrès (2)

Hybrid models for neural computations with metabolism Léon Faure,Bastien Mollet,Wolfram Liebermeister,Jean-Loup Faulon University of Stuttgart seminatr series, University of Stuttgart, Jun 2022, Stuttgart, Germany Communication dans un congrès hal-04275845v1
A simple thermodynamic relation, very useful for metabolic modelling Wolfram Liebermeister Workshop "Principles of Microbial Adaptation", Mar 2018, Leiden, Netherlands Communication dans un congrès hal-02786772v1