Highly Immersive Molecular Modeling (HIMM): An Architecture for the Integration of Molecular Modeling and Virtual Reality. - Robert C. Drees; Jürgen Pleiss; Rolf D. Schmid (German Conference on Bioinformatics, 1996)

Integrating Molecular Modeling Tools and Virtual Reality Engines: An Architecture for a Highly Immersive Molecular Modeling (HIMM) Environment. - Robert C. Drees; Jürgen Pleiss; Rolf D. Schmid; Dieter Roller 002 (Computer Graphics International, 1998)

Lipase Engineering Database. - Markus Fischer 002; Christoph Kaiser; Jürgen Pleiss; Rolf D. Schmid (German Conference on Bioinformatics, 1998)

Understanding the sequence-structure-function relationship of lipases. - Markus Fischer 002; Tanja Schulz; Jürgen Pleiss; Rolf D. Schmid (German Conference on Bioinformatics, 1999)

From sequence to function: a quantitative model of lipase enantioselectivity. - Jürgen Pleiss; Christian Gentner; Holger Scheib; Tanja Schulz; Rolf D. Schmid (German Conference on Bioinformatics, 2001)

The Lipase Engineering Database: a navigation and analysis tool for protein families. - Markus Fischer 002; Jürgen Pleiss (Nucleic Acids Res., 2003)

High-throughput molecular dynamics simulations: Long and short range effects of mutations on substrate specificity. - Fabian Bös; Natalia Currle-Linde; Peggy Lindner; Rolf D. Schmid; Jürgen Pleiss (German Conference on Bioinformatics, 2004)

The database of epoxide hydrolases and haloalkane dehalogenases: one structure, many functions. - Sandra Barth; Markus Fischer 002; Rolf D. Schmid; Jürgen Pleiss (Bioinform., 2004)

A Model of Specificity and Selectivity of Mammalian Cytochrome P450 Monooxy-genases. - Alexander Seifert; Michael Krahn; Stephan Tatzel; Rolf D. Schmid; Jürgen Pleiss (German Conference on Bioinformatics, 2005)

GriCoL: A Language for Scientific Grids. - Natalia Currle-Linde; Panagiotis A. Adamidis; Michael M. Resch; Fabian Bös; Jürgen Pleiss (e-Science, 2006)

DWARF - a data warehouse system for analyzing protein families. - Markus Fischer 002; Quan K. Thai; Melanie Grieb; Jürgen Pleiss (BMC Bioinform., 2006)

Time-Based Haptic Analysis of Protein Dynamics. - Katrin Bidmon; Guido Reina; Fabian Bös; Jürgen Pleiss; Thomas Ertl (WHC, 2007)

The Cytochrome P450 Engineering Database: a navigation and prediction tool for the cytochrome P450 protein family. - Markus Fischer 002; Michael Knoll; Demet Sirim; Florian Wagner 005; Sonja Funke; Jürgen Pleiss (Bioinform., 2007)

Visual Abstractions of Solvent Pathlines near Protein Cavities. - Katrin Bidmon; Sebastian Grottel; Fabian Bös; Jürgen Pleiss; Thomas Ertl (Comput. Graph. Forum, 2008)

The PHA Depolymerase Engineering Database: A systematic analysis tool for the diverse family of polyhydroxyalkanoate (PHA) depolymerases. - Michael Knoll; Thomas M. Hamm; Florian Wagner 005; Virginia Martinez; Jürgen Pleiss (BMC Bioinform., 2009)

The Laccase Engineering Database: a classification and analysis system for laccases and related multicopper oxidases. - Demet Sirim; Florian Wagner 005; Lei Wang 080; Rolf D. Schmid; Jürgen Pleiss (Database J. Biol. Databases Curation, 2011)

Interactive Exploration of Protein Cavities. - Michael Krone; Martin Falk; Sascha Rehm; Jürgen Pleiss; Thomas Ertl (Comput. Graph. Forum, 2011)

Systematic benchmarking of large molecular dynamics simulations employing GROMACS on massive multiprocessing facilities. - Christian C. Gruber; Jürgen Pleiss (J. Comput. Chem., 2011)

Interactive Extraction and Tracking of Biomolecular Surface Features. - Michael Krone; Guido Reina; Christoph Schulz 001; Tobias Kulschewski; Jürgen Pleiss; Thomas Ertl (Comput. Graph. Forum, 2013)

Comparative Visualization of Molecular Surfaces Using Deformable Models. - Katrin Scharnowski; Michael Krone; Guido Reina; Tobias Kulschewski; Jürgen Pleiss; Thomas Ertl (Comput. Graph. Forum, 2014)

Molecular Surface Maps. - Michael Krone; Florian Friess; Katrin Scharnowski; Guido Reina; Silvia Fademrecht; Tobias Kulschewski; Jürgen Pleiss; Thomas Ertl (IEEE Trans. Vis. Comput. Graph., 2017)

Molecular Sombreros: Abstract Visualization of Binding Sites within Proteins. - Karsten Schatz; Michael Krone; Tabea L. Bauer; Valerio Ferrario; Jürgen Pleiss; Thomas Ertl (VCBM, 2019)

Molecular Sombreros of 1CRL. - Karsten Schatz; Michael Krone; Tabea L. Bauer; Valerio Ferrario; Jürgen Pleiss; Thomas Ertl (IEEE DataPort, 2019)

Simulation Foundry: Automated and F.A.I.R. Molecular Modeling. - Gudrun Gygli; Jürgen Pleiss (J. Chem. Inf. Model., 2020)

Analyzing the similarity of protein domains by clustering Molecular Surface Maps. - Karsten Schatz; Florian Frieß; Marco Schäfer; Patrick C. F. Buchholz; Jürgen Pleiss; Thomas Ertl; Michael Krone (Comput. Graph., 2021)

Visual Analysis of Large-Scale Protein-Ligand Interaction Data. - Karsten Schatz; Juan José Franco-Moreno; Marco Schäfer; Alexander S. Rose; Valerio Ferrario; Jürgen Pleiss; Pere-Pau Vázquez; Thomas Ertl; Michael Krone (Comput. Graph. Forum, 2021)

Ontology-Based Laboratory Data Acquisition With EnzymeML for Process Simulation of Biocatalytic Reactors. - Alexander S. Behr; Elnaz Abbaspour; Katrin Rosenthal; Jürgen Pleiss; Norbert Kockmann (CoRDI, 2023)

Research Data Management in Simulation Science: Infrastructure, Tools, and Applications. - Bernd Flemisch; Sibylle Hermann; Melanie Herschel; Dirk Pflüger; Jürgen Pleiss; Jan Range; Sarbani Roy; Makoto Takamoto; Benjamin Uekermann (Datenbank-Spektrum, 2024)

MetaConfigurator: A User-Friendly Tool for Editing Structured Data Files. - Felix Neubauer; Paul Bredl; Minye Xu; Keyuriben Patel; Jürgen Pleiss; Benjamin Uekermann (Datenbank-Spektrum, 2024)