Wolfram Liebermeister

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Activités

Wolfram Liebermeister est chercheur en biologie des systèmes au sein de l'équipe BioSys de l'unité MaIAGE. Il a étudié la physique et détient un doctorat en biophysique théorique. Il est co-auteur d'un ouvrage sur la biologie des systèmes. Au cœur de ses travaux, il souligne les aspects fonctionnels du métabolisme comme la variabilité, le contrôle et l'optimalité. Les projets plus récents portent sur la prédiction des investissements cellulaires en protéines.

Axes de recherche
  1. Méthodes de calcul pour la biologie des systèmes
  2. Modèles métaboliques
  3. Analyse du bilan des ressources (RBA)
  4. Principes économiques dans le métabolisme dellulaire
Fonctions
  1. Membre élu du conseil scientifique national d'INRAE
  2. Membre du conseil de gestion PCI Mathematical and Computational Biology
  3. Forum Economic Principles in Cell Physiology
  4. Ouvrage Economic Principles in Cell Biology
  5. École d'été Economic Principles in Cell Biology

Coordonnées

Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
Unité MaIAGE, Domaine de Vilvert, Bâtiment 210, 78350 Jouy en Josas

wolfram.liebermeister at inrae.fr

Propagande

            

Outils pour la biologie des systèmes

  1. RBA: Analyse du bilan des ressources
  2. Proteomaps: visualisation des données protéomiques
  3. SBtab: format de données pour la biologie des systèmes
  4. ObjTables: schémas pour les fichiers de données
  5. Parameter balancing
  6. Model balancing
  7. Modélisation structurelle-thermokinétique
  8. Minimisation du coût des enzymes
  9. Metabolic Network Toolbox
  10. semanticSBML: Outils pour les modèles au format SBML
  11. SB.OS: Outils pour la biologie des systèmes

Code

  1. Code sur github: https://github.com/liebermeister
  2. Noor E. and Liebermeister W. (2023). Optimal enzyme profiles in unbranched metabolic pathways: Jupyter Notebooks. Zenodo

CV

Expérience professionelle

2019 Chercheur invité, Mount Sina New York (Karr Lab)
Depuis 2017 Directeur de recherche, INRAE Jouy-en-Josas
2017 Chercheur invité, Technion Haifa (Shlomi Lab)
2016 Chercheur invité, Institute for Advanced Bioscience, Keio University (Murray Lab)
2011 - 2016 Chercheur, Institut de biochimie, Charité - Universitätsmedizin Berlin
2011 Chercheur invité Department of Plant Sciences, Weizmann Institute of Science (Milo Lab)
2009 - 2010 Postdoctorant, Theoretical Biophysics, Université Humboldt Berlin
2007 - 2008 Postdoctorant, Computational Systems Biology, MPI for Molecular Genetics, Berlin
2005 Minerva fellow, Department of Molecular Cell Biology, Weizmann Institute of Science (Alon Lab)
2004 - 2006 Postdoctorant, MPI for Molecular Genetics, Berlin, Kinetic Modeling Group
2003 - 2004 Chercheur, Department of Mathematics and Computer Science, Université libre de Berlin
1997 - 1998 Chargé de cours (physique), Leibnizkolleg Tübingen

Diplômes

2013 Habilitation (allemande) en biophysique théorique, Université Humboldt Berlin
2004 Doctorat en biophysique théorique, Université Humboldt Berlin
1998 Diplôme (M2) de physique, Université Hamburg

Publications

Publications et révisions d'articles

  1. Publications sur Google Scholar | ResearchGate | HAL INRAE
  2. Téléchargements de preprints sur Rxivist
  3. Révisions d'articles sur Publons
  4. ORCiD 0000-0002-2568-2381

Preprints

  1. A compact model of Escherichia coli core and biosynthetic metabolism
    Corrao M., He H., Liebermeister W., Noor E., Bar-Even A. (2024) arXiv:2406.16596
  2. Fibration symmetry uncovers minimal regulatory networks for logical computation in bacteria
    Álvarez-García L.A., Liebermeister W., Leifer I., Makse H.A. (2023) arXiv:2310.10895
  3. ObjTables: structured spreadsheets that promote data quality, reuse, and integration
    Karr J.R., Liebermeister W., Goldberg A.P., Sekar J.A.P., Shaikh B. (2020) arXiv:2005.05227
  4. Optimal metabolic states in cells
    Liebermeister W. (2018/2022) bioRxiv doi:10.1101/483867
  5. The value structure of metabolic states
    Liebermeister W. (2018/2022) bioRxiv doi:10.1101/483891
  6. Flux cost functions and optimal metabolic states
    Liebermeister W. (2018/2022) arXiv:1801.05742
  7. Optimal enzyme rhythms in cells
    Liebermeister W. (2016/2022), arXiv:1602.05167
  8. Enzyme economy and metabolic control
    Liebermeister W. (2014/2022), arXiv:1404.5252
  9. Metabolic fluxes and value production
    Liebermeister W. (2014/2022), arXiv:1404.5072

Articles de journaux

  1. Optimal enzyme profiles in unbranched metabolic pathways
    Noor E. and Liebermeister W. (2024)
    Interface Focus 14 (1), Special Issue "50 Years of metabolic control analysis" [html]
  2. A neural-mechanistic hybrid approach improving the predictive power of genome-scale metabolic models
    Faure L., Mollet B., Liebermeister W., Faulon J.-L. (2023)
    Nature Communications 14, 4669 [html]
  3. Mathematical properties of optimal fluxes in cellular reaction networks at balanced growth
    Dourado H., Liebermeister W., Ebenhöh O., Lercher M.J. (2023)
    PLoS Computational Biology, doi 10.1371/journal.pcbi.1011156
  4. RBAtools: a programming interface for Resource Balance Analysis models
    Bodeit O., Ben Samir I., Karr J.R., Goelzer A., Liebermeister W. (2023)
    Bioinformatics Advances, vbad056
  5. Structural thermokinetic modelling
    Liebermeister W. (2022)
    Metabolites 12(5), 434. [html]
  6. BioSimulators: a central registry of simulation engines and services for recommending specific tools
    Shaikh B., Smith L.P., Vasilescu D., Marupilla G., et al. (2022)
    Nucleic Acids Research, gkac331. [html]
  7. Model Balancing: a search for in-vivo kinetic constants and consistent metabolic states
    Liebermeister W. and Noor E. (2021)
    Metabolites 11(11), 749. [html]
  8. SBML Level 3: an extensible format for the exchange and reuse of biological models
    Keating S.M. et al. (2020)
    Molecular Systems Biology (2020)16:e9110. [html]
  9. Clb3-centered regulations are recurrent across distinct parameter regions in minimal autonomous cell cycle oscillator designs
    Mondeel T.D.G.A., Ivanov O., Westerhoff H.V., Liebermeister W., Barberis M. (2020)
    npj Systems Biology and Applications 6, Article number: 8. [html]
  10. Automated generation of bacterial resource allocation models
    Bulović A., Fischer S., Dinh M., Golib F., Liebermeister W., Poirier C., Tournier L., Klipp E., Fromion V., Goelzer A. (2019),
    Metabolic Engineering 55 (2019) 12–22. [html]
  11. Parameter balancing: consistent parameter sets for kinetic metabolic models
    Lubitz T. and Liebermeister W. (2019),
    Bioinformatics 35 (19) 3857. [html]
  12. Metabolite–enzyme coevolution: from single enzymes to metabolic pathways and networks
    Noda-Garcia L., Liebermeister W., and Tawfik D.S. (2018),
    Annual Review of Biochemistry (87): 187-216. [html]
  13. Metabolic enzyme cost explains variable trade-offs between microbial growth rate and yield
    Wortel M.T., Noor E., Ferris M., Bruggeman F.J., Liebermeister W. (2018),
    PLoS Computational Biology 14(2): e1006010. [html] [preprint on bioRxiv]
  14. The protein cost of metabolic fluxes: prediction from enzymatic rate laws and cost minimization
    Noor E., Flamholz A., Bar-Even A., Davidi D., Milo R., Liebermeister W. (2016),
    PLoS Computational Biology 12 (10): e1005167. [html] [convexity proof on arXiv]
  15. Notions of similarity for systems biology models
    Henkel R., Hoehndorf R., Kacprowski T., Knüpfer C., Liebermeister W., Waltemath D. (2016),
    Briefings in Bioinformatics, doi 10.1093/bib/bbw090. [html] [preprint on bioRxiv]
  16. Toward community standards and software for whole-cell modeling
    Waltemath D. , Karr J. , Bergmann F. , Chelliah V. , Hucka M. , Krantz M., Liebermeister W., Mendes P., Myers C., Pir P., Alaybeyoglu B., Aranganathan N., Baghalian K., Bittig A., Burke P., Cantarelli M., Chew Y., Costa R., Cursons J., Czauderna T., Goldberg A., Gomez H., Hahn J., Hameri T., Gardiol D., Kazakiewicz D., Kiselev I., Knight-Schrijver V., Knüpfer C., König M., Lee D., Lloret-Villas A., Mandrik N., Medley J., Moreau B., Naderi-Meshkin H., Palaniappan S., Priego-Espinosa D., Scharm M., Sharma M., Smallbone K., Stanford N., Song J. H., Theile T., Tokic M., Tomar N., Toure V., Uhlendorf J., Varusai T., Watanabe L., Wendland F., Wolfien M., Yurkovich J., Zhu Y., Zardilis A., Zhukova A., Schreiber F. (2016)
    IEEE Transactions on Biomedical Engineering 63 (10). [html]
  17. SBtab: A flexible table format for data exchange in systems biology
    Lubitz T., Hahn J., Bergmann F.T., Noor E., Klipp E., Liebermeister W. (2016)
    Bioinformatics 32 (16) 2559–2561. [html]
  18. Global characterization of in vivo enzyme catalytic rates and their correspondence to in vitro kcat measurements
    Davidi D., Noor E., Liebermeister W., Bar-Even A., Flamholz A., Tummler K., Barenholz U., Goldenfeld M., Shlomi T., Milo R. (2016)
    PNAS 113 (12) 3401-3406. [html]
  19. Visual account of protein investment in cellular functions
    Liebermeister W., Noor E., Flamholz A., Davidi D., Bernhardt J., Milo R. (2014)
    PNAS 111 (23), 8488-8493. [html]
  20. Pathway thermodynamics highlights kinetic obstacles in central metabolism
    Noor E., Bar-Even A., Flamholz A., Reznik E., Liebermeister W., Milo R. (2014)
    PLoS Computational Biology 10 (2) e1003483. [html] [pdf]
  21. Systematic construction of kinetic models from genome-scale metabolic networks
    Stanford N.J., Lubitz T., Smallbone K., Klipp E., Mendes P., Liebermeister W. (2013)
    PLoS ONE 8(11): E79195. [html]
  22. Steady-state metabolite concentrations reflect a balance between maximizing enzyme efficiency and minimizing total metabolite load
    Tepper N., Noor E., Amador-Noguez D., Haraldsdóttir H.S., Milo R., Rabinowitz J., Liebermeister W., Shlomi T. (2013)
    PLoS ONE 8(9): e75370. [html] [pdf]
  23. A note on the kinetics of enzyme action: a decomposition that highlights thermodynamic effects
    Noor E., Flamholz A., Liebermeister W., Bar-Even A., Milo R. (2013)
    FEBS Letters 587(17): 2772-2777 [Abstract]
  24. Glycolytic strategy as a tradeoff between energy yield and protein cost
    Flamholz A., Noor E., Bar-Even A., Liebermeister W., Milo R. (2013)
    PNAS 110(24): 10039-10044. [Abstract] [pdf]
  25. Spanning high-dimensional expression space using ribosome-binding site combinatorics
    Zelcbuch L., Antonovsky N., Bar-Even A., Levin-Karp A., Barenholz U., Dayagi M., Liebermeister W., Flamholz A., Noor E., Amram S., Brandis A., Bareia T., Yofe I., Jubran H., Milo R. (2013)
    Nucleic Acids Res. 41(9):e98. [html]
  26. Shapes and deformations of polyhedral rings formed by corpuscle elements
    Wohlleben E. and Liebermeister W. (2012)
    Journal for Geometry and Graphics 16 (1), 59-67. [Preprint pdf]
  27. Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism
    Buescher J.M., Liebermeister W. , Jules M., Uhr M., Muntel J., Botella E. , Hessling B. , Kleijn R.J., Le Chat L., Lecointe F., Mäder U., Nicolas P., Piersma S., Rügheimer F., Becher D., Bessieres P., Bidnenko E., Denham E.L., Dervyn E., Devine K.M., Doherty G., Drulhe S., Felicori L., Fogg M.J., Goelzer A., Hansen A., Harwood C.R., Hecker M., Hubner S., Hultschig C., Jarmer H., Klipp E., Leduc A., Lewis P., Molina F., Noirot P., Peres S. , Pigeonneau N., Pohl S., Rasmussen S., Rinn B., Schaffer M., Schnidder J., Schwikowski B., van Dijl J.M., Veiga P., Walsh S., Wilkinson A.J., Stelling J., Aymerich S., Sauer U. (2012)
    Science 335 (6072), 1099-1103. [Abstract]
  28. Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis
    Nicolas P., Mäder U., Dervyn E., Rochat T., Leduc A., Pigeonneau N., Bidnenko E., Marchadier E., Hoebeke M., Aymerich S., Becher D., Bisicchia P., Botella E., Delumeau O., Doherty G., Denham E.L., Fogg M.J., Fromion V., Goelzer A., Hansen A., Härtig E., Harwood C.R., Homuth G., Jarmer H., Jules M., Klipp E., Le Chat L., Lecointe F., Lewis P., Liebermeister W., March A., Mars R.A.T., Nannapaneni P., Noone D., Pohl S., Rinn B., Rügheimer F., Sappa P.K., Samson F., Schaffer M., Schwikowski B., Steil L., Stülke J., Wiegert T., Devine K.M., Wilkinson A.J., van Dijl J.M., Hecker M., Völker U., Bessieres P., Noirot P. (2012)
    Science 335 (6072), 1103-1106. [Abstract]
  29. Propagating semantic information in biochemical network models
    Schulz M., Klipp E., Liebermeister W. (2012)
    BMC Bioinformatics 13:18. [Article]
  30. Retrieval, alignment, and clustering of computational models based on semantic annotations
    Schulz M., Krause F., Le Novère N., Klipp E., Liebermeister W.(2011)
    Molecular Systems Biology 7, Article number: 512. [pdf]
  31. The moderately efficient enzyme: evolutionary and physicochemical trends shaping enzyme parameters
    Bar-Even A., Noor E., Savir Y., Liebermeister W., Davidi D., Tawfik DS., Milo R. (2011)
    Biochemistry 50 (21): 4402-4410. [Abstract]
  32. Parameter balancing in kinetic models of cell metabolism
    Lubitz T., Schulz M., Klipp E., Liebermeister W. (2010)
    Journal of Physical Chemistry B 114(49):16298-16303. [Abstract] [html] [pdf]
  33. Integrating quantitative proteomics and metabolomics with a genome-scale metabolic model
    Yizhak K., Benyamini T., Liebermeister W., Ruppin E., Shlomi T. (2010)
    ISMB 2010. Bioinformatics 26 (12) Pp. i255-i260. [html] [pdf]
  34. Modular rate laws for enzymatic reactions: thermodynamics, elasticities, and implementation
    Liebermeister W., Uhlendorf J., Klipp E. (2010)
    Bioinformatics 26(12):1528-1534. [Abstract] [pdf]
  35. A quantitative study of the Hog1 MAPK response to fluctuating osmotic stress in Saccharomyces cerevisiae
    Zhi Z., Liebermeister W., Klipp E. (2010)
    PLoS One 5 (3), e9522. [html] [pdf]
  36. Annotation and merging of SBML models with semanticSBML
    Krause F, Uhlendorf J., Lubitz T., Schulz M., Klipp E., Liebermeister W. (2010)
    Bioinformatics 26 (3), 421-422. [html] [pdf] [semanticSBML website]
  37. A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology
    Herrgard M. J., Swainston N., Dobson P., Dunn W. B., Arga K. Y., Arvas M., Blüthgen N., Borger S., Costenoble R., Heinemann M., Hucka M., Le Novere N., Li P., Liebermeister W., Mo M. L., Oliveira A. P., Petranovic D., Pettifer S., Simeonidis E., Smallbone K., Spasie I., Weichart D., Brent R., Broomhead D. S., Westerhoff H. V., Kürdar B., Penttilä M., Klipp E., Palsson B. O., Sauer U., Oliver S. G., Mendes P., Nielsen J., Kell D. B. (2008)
    Nature Biotechnology 26, 1155-1160. [html] [pdf]
  38. Systems biology standards - the community speaks
    Klipp E., Liebermeister W., Helbig A., Kowald A., Schaber J. (2007)
    Nature Biotechnology 25, 390 - 391. [html] [pdf] [supplement]
  39. Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data
    Liebermeister W. and Klipp E. (2006)
    Theoretical Biology and Medical Modelling 3:42. [html] [pdf]
  40. Bringing metabolic networks to life: convenience rate law and thermodynamic constraints
    Liebermeister W. and Klipp E. (2006)
    Theoretical Biology and Medical Modelling 3:41. [html] [pdf] [correction]
  41. Mathematical modeling of intracellular signaling pathways
    Klipp E. and Liebermeister W. (2006)
    BMC Neuroscience 2006, 7 (Suppl 1):S10. [html] - [pdf]
  42. A comprehensive library of fluorescent transcriptional reporters for Escherichia Coli
    Zaslaver A., Bren A., Ronen M., Itzkovitz S., Kikoin I., Shavit S., Liebermeister W., Surette M. G., Alon U., (2006)
    Nature Methods 3, 623 - 628. [html] - [pdf]
  43. Predicting physiological concentrations of metabolites from their molecular structure
    Liebermeister W. (2005)
    Journal of Computational Biology 12 (10), 1307-1315. [Abstract] - [pdf]
  44. Biochemical networks with uncertain parameters
    Liebermeister W., Klipp E. (2005)
    IEE Proceedings - Systems Biology 152 (3) 97-107. [Abstract] - [pdf]
  45. Biochemical network models simplified by balanced truncation
    Liebermeister W., Baur U., Klipp E. (2005)
    FEBS Journal, 272 (16) 4034 - 4043. FEBS Journal, 272 (16) 4034 - 4043. [pdf]
  46. Response to temporal parameter fluctuations in biochemical networks
    Liebermeister W. (2005)
    Journal of Theoretical Biology 234 (3), 423-438. [html] - [pdf]
  47. A theory of optimal differential gene expression
    Liebermeister W., Klipp E., Schuster S., Heinrich R. (2004)
    BioSystems 76, 261-278. [html] - [pdf]
  48. Does mapping reveal correlation between gene expression and protein-protein interaction?
    Mrowka R., Liebermeister W., Holste D. (2003)
    Nature Genetics 33 (1), 15-16. [html] - [pdf]
  49. Linear modes of gene expression determined by independent component analysis
    Liebermeister W. (2002)
    Bioinformatics 18, 51-60. [Abstract] - [pdf] - [supplement]
  50. Ratcheting in post-translational protein translocation: a mathematical model
    Liebermeister W., Rapoport T. A., Heinrich R. (2001)
    Journal of Molecular Biology 305, 643-656. [html] - [Abstract] - [pdf]

Commentaires

  1. How mammals adapt their breath to body activity – and how this depends on body size.
    Recommendation for PCI Math Comp Biol (2021), doi.org/10.24072/pci.mcb.100005

Livres

  1. Economic Principles in Cell Biology
    (2023): The Economic Cell Collective. [pdf sur zenodo]
  2. Systems Biology - A Textbook
    Première edition (2009): Klipp E., Liebermeister W., Wierling C., Kowald A., Lehrach H., Herwig R. [site web]
  3. Systems Biology - A Textbook
    Deuxième edition (2016): Klipp E., Liebermeister W., Wierling C., Kowald A. [site web]

Chapitres de livre

  1. The enzyme cost of metabolic fluxes
    Liebermeister, W. and Noor, E. (2023) [pdf on zenodo]
    In Economic Principles in Cell Biology
  2. Optimization of metabolic states
    Kremling A., Liebermeister W., Noor E. and Wortel M.T. (2023) [pdf on zenodo]
    In Economic Principles in Cell Biology
  3. Resource allocation in complex cell models
    Dourado H., Goelzer A., Grigaitis P., Liebermeister W. and Noor, E. (2023) [pdf on zenodo]
    In Economic Principles in Cell Biology
  4. Traces and Frames
    Liebermeister, W. and Pollman T.C. (2017)
    In Pollman T.C.: tracelation. [pdf]
  5. Knowledge Management for Systems Biology
    Leser, U. and Liebermeister, W. (2013)
    In Dubitzky, W., Wolkenhauer, O., Cho, K.-H. and Yokota, H. (ed): Encyclopedia of Systems Biology.
  6. Sustainable model building: the role of standards and biological semantics
    Krause F., Schulz M., Swainston N., Liebermeister W. (2011)
    In Jameson D., Verma M., and Westerhoff H.V. (ed): Methods in Enzymology, Vol. 500, 371-395. [Science direct]

Articles de conférence

  1. Deciphering the design principles of dynamic cell cycle control
    Barberis M., Mondeel T.D.G.A., Linke C., Supady A., Chasapi A., Liebermeister W., Loog M., Xenarios I., and Kitano H. (2015)
    Yeast 32 (S1), S1-S292
    27th International Conference on Yeast Genetics and Molecular Biology
    [html]
  2. Periodic corpuscle structures and the spaces in between
    Wohlleben E. and Liebermeister W. (2012) 15th International Conference on Geometry and Graphics
    [pdf]
  3. semanticsSBML 2.0 - A Collection of Online Services for SBML Models
    Krause F., Schulz M., Lubitz T., Liebermeister W. (2010) Workshop on Semantic Web Applications and Tools for Life Sciences
  4. Tension and deformations in elastic polyhedral rings made of corpuscle elements
    Wohlleben E. and Liebermeister W. (2010) 14th International Conference on Geometry and Graphics
    [pdf]
  5. Nested uncertainty in biochemical models
    Schaber J., Liebermeister W., Klipp E. (2009)
    IET Systems Biology 3 (1), 1-9. [pdf]
  6. Exploring the effect of variable enzyme concentrations in a kinetic model of yeast glycolysis
    Bruck J., Liebermeister W., Klipp E. (2008)
    Genome Informatics Series 20. [pdf]
  7. Merging of systems biology models with semanticSBML
    Liebermeister W., Krause F., Klipp E. (2008)
    5th Workshop on Computation of Biochemical Pathways and Genetic Networks. [pdf]
  8. The corpuscle - a simple building block for polyhedra networks
    Wohlleben E. and Liebermeister W. (2008)
    13th International Conference on Geometry and Graphics. [pdf]
  9. Validity and combination of biochemical models
    Liebermeister W. (2008)
    Proceedings of 3rd International ESCEC Workshop on Experimental Standard Conditions on Enzyme Characterizations. [proceedings] [pdf]
  10. Automatically generated model of a metabolic network
    Borger S., Liebermeister W., Uhlendorf J., Klipp E. (2007)
    Genome Informatics Series 18 (1), 215-224. [pdf]
  11. Integration of enzyme kinetic data from various sources
    Borger S., Uhlendorf J., Helbig A., Liebermeister W. (2007)
    In Silico Biology 7 S1, 09. [html] [pdf]
  12. Structural analysis of expressed metabolic subnetworks
    Ebenhöh O. and Liebermeister W. (2006)
    Genome Informatics Series 17 (1). [Abstract] - [pdf]
  13. Prediction of enzyme kinetic parameters based on statistical learning
    Borger S., Liebermeister W., Klipp E. (2006)
    Genome Informatics Series 17 (1). [Abstract] - [pdf]
  14. SBMLmerge, a system for combining biochemical network models
    Schulz M., Uhlendorf J., Klipp E., Liebermeister W. (2006)
    Genome Informatics Series 17 (1). [pdf]
  15. Dimension reduction by balanced truncation applied to a model of glycolysis
    Liebermeister W. (2005)
    Proceedings of the 4th workshop on computation of biochemical pathways and genetic networks
    Logos-Verlag, Berlin, 21-28. [pdf]
  16. Distribution of a bifurcation parameter in a genetic network with uncertain parameters
    Borger S., Liebermeister W., Klipp E. (2005)
    Proceedings of the 4th workshop on computation of biochemical pathways and genetic networks
    Logos-Verlag, Berlin, 95-101. [pdf]
  17. Inferring dynamic properties of biochemical reaction networks from structural knowledge
    Klipp E., Liebermeister W., Wierling C. (2004)
    Genome Informatics Series 15 (1), 125-137. [pdf]
  18. Independent component analysis of gene expression data
    Liebermeister W. (2001)
    Proceedings of the 2nd workshop on computation of biochemical pathways and genetic networks
    Logos-Verlag, Berlin, 39-44.
  19. Mathematical modelling of posttranslational protein translocation
    Heinrich R., Liebermeister W., Rapoport T.A. (2000)
    9th International BioThermoKinetics Meeting (BTK 2000), 237-241.
  20. Mutual information analysis of surrogate gene expression data
    Holste D., Beule D., Liebermeister W., Schuchhardt J., Herzel H. (1999)
    German Conference on Bioinformatics, 201-204.
  21. Atomic positions in icosahedral quasicrystals
    Kramer P., Papadopolos Z., Liebermeister W. (1998)
    Proceedings of the 6th International Conference on Quasicrystals, Yamada Conference XLVII, World Scientific, Singapore, 71-76.
  22. Atomic positions for the icosahedral F-Phase tiling
    Papadopolos Z., Kramer P., Liebermeister W. (1998)
    Proceedings of the International Conference on Aperiodic Crystals, Aperiodic 1997, World Scientific, Singapore, 173-81.

Documents sur les standards et formats de modèles

  1. SBtab - Conventions for structured data tables in Systems Biology
    Liebermeister W., Lubitz T., and Hahn J. (2015), arXiv:1502.01463
  2. SBML Level 3 package: Hierarchical Model Composition, Version 1 Release 3
    Smith L.P., Hucka M., Hoops S., Finney A., Ginkel M., Myers C.J., Moraru I., Liebermeister W. (2015)
    Journal of Integrative Bioinformatics, 12(2):268 [html]
  3. SBML Level 3 Package Proposal: Annotation
    Waltemath D., Swainston N., Lister AL., Bergmann F., Henkel R., Hoops S., Hucka M., Juty N., Keating S., Knüpfer C., Krause F., Laibe C., Liebermeister W., Lloyd C., Misirli G., Schulz M., Taschuk M., Le Novere N. (2011), Nature Precedings [html]
  4. A simple clustering of the BioModels database using semanticSBML
    Krause F., Liebermeister W. (2009)
    BioModels Meeting 2009, March 2009, Nature Precedings [html]
  5. SemanticSBML: a tool for annotating, checking, and merging of biochemical models in SBML format
    Liebermeister W., Krause F., Uhlendorf J., Lubitz T., Klipp E. (2009)
    3rd International Biocuration Conference, 2009, Nature Precedings [html]

Ouvrages diplômants

  1. Construction and control analysis of biochemical network models
    Habilitation (allemande) (2013) [pdf]
  2. Analysis of optimal gene expression
    Doctorat (2004) [pdf]
  3. Geometrie und Elektronenstruktur der Quasikristalle i-AlCuFe und i-AlPdMn
    Diplôme de physique (1998) [pdf]

Posters

  1. Enzyme economy in metabolic networks
    ICSB 2018, Lyon [pdf]