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Sascha Bulik
Computational Systems Biochemistry Group
phone +49 30 450 528 466 |
charite.de
Research Interests
- Systems biology
- Kinetic modeling in proteomics (Antigen presentation)
- Kinetic model of hepatocyte metabolism
- Development of methods for kinetic modeling of complex systems
- Membrane biogenesis modeling of a Toxoplasma gondii-infected human cell and deduction of underlying metabolic principles
Publications
Herling A, König M, Bulik S, Holzhütter HG. (2011) Enzymatic Features of the Glucose Metabolism in Tumor Cells. FEBS J., doi: 10.1111/j.1742-4658.2011.08174.x. [PubMed]
Gille C, Bölling C, Hoppe A, Bulik S, Hoffmann S, Hübner K, Karlstädt A, Ganeshan R, König M, Rother K, Weidlich M, Behre J, Holzhütter HG. (2010) HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology. Mol Syst Biol., 6:411. [PubMed]
Huthmacher C, Hoppe A, Bulik S, Holzhutter HG. (2010) Antimalarial drug targets in Plasmodium falciparum predicted by stage-specific metabolic network analysis. BMC Syst Biol., 4(1):120. [Epub ahead of print] [PubMed]
Rother K, Hoffmann S, Bulik S, Hoppe A, Gasteiger J, Holzhütter HG. (2010) IGERS: Inferring Gibbs energy changes of biochemical reactions from reaction similarities. Biophys J., 98(11):2478-86. [PubMed]
Bulik S, Grimbs S, Huthmacher C, Selbig J, Holzhütter HG. (2009) Kinetic hybrid models composed of mechanistic and simplified enzymatic rate laws: A promising method for speeding up the kinetic modelling of complex metabolic networks. FEBS Journal, 276:410-424 [PubMed]
Schatz MM, Peters B, Akkad N, Ullrich N, Martinez AN, Carroll O, Bulik S, Rammensee HG, van Endert P, Holzhütter HG, Tenzer S, Schild H. (2008) Characterizing the N-terminal processing motif of MHC class I ligands. J Immunol., 180(5):3210-7. [PubMed]
Grimbs S, Selbig J, Bulik S, Holzhütter HG, Steuer R. (2007) The stability and robustness of metabolic states: identifying stabilizing sites in metabolic networks. Mol Syst Biol., 3:146. [PubMed]
Bulik S, Peters B, Holzhütter HG. (2005) Quantifying the contribution of defective ribosomal products to antigen production: a model-based computational analysis. J Immunol., 175(12):7957-64. [PubMed]
Tenzer S, Peters B, et al. (2005) Modeling the MHC class I pathway by combining predictions of proteasomal cleavage, TAP transport and MHC class I binding. Cell. Mol. Life Sci., 62(9), 1025-37. [PubMed]
Bulik S, Peters B, et al. (2004) Cytosolic processing of proteasomal cleavage products can enhance the presentation efficiency of MHC-1 epitopes. Genome Inform Ser Workshop Genome Inform, 15(1), 24-34. [PubMed]
Dandekar T, Moldenhauer F, Bulik S, Bertram H, Schuster S. (2003) A method for classifying metabolites in topological pathway analyses based on minimization of pathway number. Biosystems., 70(3):255-70. [PubMed]
Peters B, Bulik S, Tampe R, van Endert PM, and Holzhütter HG. (2003) Identifying MHC-I epitopes by predicting the TAP transport efficiency of epitope precursors. J. Immunol., 171(4), 1741-1749. [PubMed]