Theses:

Research done in the EML Research Molecular and Cellular Modeling (MCM) Group:

2009

Pachov, G.
Linker Histone-Nucleosome Interactions: A Modelling and Simulation Study.
PhD. thesis (2009) Combined Faculties of the Natural Sciences and for Mathematics, Ruperto-Carola University of Heidelberg, Germany.

Berynskyy, M.
Automatisierte Analyse von Brownian Dynamics Simulationen
Diplom thesis (2009) Bioinformatics, Giessen-Friedberg University of Applied Sciences, Germany.

2007

Motiejunas, D.
Modeling of macromolecular interactions.
PhD. thesis (2007) Combined Faculties of the Natural Sciences and for Mathematics, Ruperto-Carola University of Heidelberg, Germany.

2006

Zahran, M.
Analyse a haut debit des proprietes electrostatiques des proteines de la famille des ubiquitines (High-throughput analysis of the electrostatic properties of proteins of the ubiquitin family)
Masters thesis (Bioinformatics) (2006) University Paris VII, France.

2005

Johann, T.I.
Perturbation Methods in Molecular Dynamics Simulations with Implicit Solvent Models
Diploma Thesis/Diplomarbeit (Physics) (2005) University of Heidelberg, Germany.

Ulbrich, S.
The Protein Structure Annotation Tool ProSAT2
Studienarbeit (Computer Science) (2005) University of Karlsruhe, Germany.

Besson, B.
Development of a software to aid the search of protein structural information to estimate kinetic parameters in systems biology applications
Internship report, Masters degree (Bioinformatics and Modeling) (2005) National Institute of Applied Science (INSA) Lyon, France.

2004

Motiejunas, D.
Protein-protein docking assisted by sequence conservation and experimental data
Masters Thesis (Molecular Biology) (2004) University of Heidelberg, Germany.

Hallingbaeck, H. R.
Peroxidases: A computational study of ligand binding and enzyme kinetics
Masters Thesis (Molecular Biotechnology) (2004) Uppsala University School of Engineering, Uppsala, Sweden.

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Research done in the EML Molecular and Cellular Modeling (MCM) Group:

2003

Neumann, G. F.
Entwicklung einer erweiterten Anwendung der Hauptkomponentenanalyse fuer das Protein-Protein Dockingproblem
Diplomarbeit (Physics) (2003) Ruprecht-Karls-Universitaet, Heidelberg, Germany.

Noubibou Doudieu, O.M.
Using Sequence Information in Protein Docking Procedures
Masters Thesis (Bioinformatics) (2003) University of Applied Sciences, Berlin, Germany.

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Research done in the EML MCM group and the EMBL Wade Group:

2001

Gonzalez, A.
Glycolytic Pathway Reaction Animations
Diplomarbeit (Biology) (2001) University of Heidelberg, Germany.



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Research done in the EMBL Wade Group:

2003

Battey, J. N. D.
High-throughput Structural and Electrostatic Modelling of Ubiquitin Conjugating Enzymes
Masters thesis (Bioinformatics) (2003), Exeter University, Exeter, United Kingdom.

Pulagam, V. L. Padmavathi
Structure-based design of inhibitors of enzymes of the ubiquitin mediated protein degradation pathway
Diploma (Bioinformatics) (2003) Cologne University Bioinformatics Center, University of Cologne, Germany.

1999

Nardi, F.
Molecular Dynamics and NMR Spectroscopic Studies of Local Interactions of Small Peptides in Aqueous Solution Involving Aromatic Residues
Ph. D. (1999) Universite Joseph Fourier, Grenoble, France.
Kobayashi, M.
Chloride ion exchange routes in Haloalkane Dehalogenase from Xanthobacter autrophicus detected by Thermal Motion Pathway analysis, GRID and Essential Dynamics
M. Res. External Placement Project (1999) University of York, England.
Gauges, R.
Molekulardynamische Simulation zur Aufklaerung des Substratzuganges in Cytochrom P450eryF
Diplom (1999) Eberhard-Karls-Universitaet, Tubingen, Germany.

1996

Reimer, N.
Dynamische Einstellung des Parallelitaetsgrades mit reflexiven Programmen
Diplom (1996) University of Karlsruhe, Germany.
Ortiz, A.R.
Rational design of Human Synovial Fluid Phospholipase A2 inhibitors and analysis of their three-dimensional structure-activity relationships
Ph. D. (1996) University of Alcala de Henares, Madrid, Spain.
Helms, V.
Hydratation des aktiven Zentrums von Cytochrom P450cam - Untersuchung mit Molekueldynamik-Simulationen
Ph. D. (1996) Ludwig-Maximilians-Universitaet, Muenchen, Germany.

1995

Degenhardt, M.
De-Novo Design von Liganden zur Blockierung der Substratzugaenlichkeit von Cytochrom P450cam
Diplom (1995) Ruprecht-Karls-Universitaet, Heidelberg, Germany.