GeoMine: interactive pattern mining of protein-ligand interfaces in the Protein Data Bank. - Konrad Diedrich; Joel Graef; Katrin Schöning-Stierand; Matthias Rarey (Bioinform., 2021)

ProteinsPlus: a comprehensive collection of web-based molecular modeling tools. - Katrin Schöning-Stierand; Konrad Diedrich; Christiane Ehrt; Florian Flachsenberg; Joel Graef; Jochen Sieg; Patrick Penner; Martin Poppinga; Annett Ungethüm; Matthias Rarey (Nucleic Acids Res., 2022)

Database and Workflow Optimizations for Spatial-Geometric Queries in GeoMine. - Martin Poppinga; Joel Graef; Konrad Diedrich; Matthias Rarey; Norbert Ritter (LWDA, 2023)

Binding Site Detection Remastered: Enabling Fast, Robust, and Reliable Binding Site Detection and Descriptor Calculation with DoGSite3. - Joel Graef; Christiane Ehrt; Matthias Rarey (J. Chem. Inf. Model., 2023)

Optimization and Evaluation Datasets for PiMine. - Joel Graef; Christiane Ehrt; Thorben Reim; Matthias Rarey (UHH-FDR, 2023)

Database-Driven Identification of Structurally Similar Protein-Protein Interfaces. - Joel Graef; Christiane Ehrt; Thorben Reim; Matthias Rarey (J. Chem. Inf. Model., 2024)

Methoden zur geometrischen Suche in Proteinstruktursammlungen (Methods for Geometric Mining in Protein Structure Collections) - Joel Graef (2024)

Optimization and Evaluation Datasets for PiMine. - Joel Graef; Christiane Ehrt; Thorben Reim; Matthias Rarey (UHH-FDR, 2024)

Optimization and Evaluation Datasets for PiMine. - Joel Graef; Christiane Ehrt; Thorben Reim; Matthias Rarey (UHH-FDR, 2024)

User-centric design of a 3D search interface for protein-ligand complexes. - Konrad Diedrich; Christiane Ehrt; Joel Graef; Martin Poppinga; Norbert Ritter; Matthias Rarey (J. Comput. Aided Mol. Des., 2024)