RHYTHM - a server to predict the orientation of transmembrane helices in channels and membrane-coils. - Alexander S. Rose; Stephan Lorenzen; Andrean Goede; Björn A. Grüning; Peter Werner Hildebrand (Nucleic Acids Res., 2009)

MPlot - a server to analyze and visualize tertiary structure contacts and geometrical features of helical membrane proteins. - Alexander S. Rose; Andrean Goede; Peter Werner Hildebrand (Nucleic Acids Res., 2010)

Voronoia4RNA - a database of atomic packing densities of RNA structures and their complexes. - Jochen Ismer; Alexander S. Rose; Johanna K. S. Tiemann; Andrean Goede; Kristian Rother; Peter Werner Hildebrand (Nucleic Acids Res., 2013)

MP: PD - a data base of internal packing densities, internal packing defects and internal waters of helical membrane proteins. - Alexander S. Rose; Dominic Theune; Andrean Goede; Peter Werner Hildebrand (Nucleic Acids Res., 2014)

NGL Viewer: a web application for molecular visualization. - Alexander S. Rose; Peter W. Hildebrand (Nucleic Acids Res., 2015)

Web-based molecular graphics for large complexes. - Alexander S. Rose; Anthony R. Bradley; Yana Valasatava; Jose M. Duarte; Andreas Prlic; Peter W. Rose (Web3D, 2016)

SL2: an interactive webtool for modeling of missing segments in proteins. - Jochen Ismer; Alexander S. Rose; Johanna K. S. Tiemann; Andrean Goede; Robert Preissner; Peter W. Hildebrand (Nucleic Acids Res., 2016)

Molecular Visualization of Computational Biology Data: A Survey of Surveys. - Naif Alharbi; Mohammad Alharbi; Xavier Martinez; Michael Krone; Alexander S. Rose; Marc Baaden; Robert S. Laramee; Matthieu Chavent (EuroVis (Short Papers), 2017)

DeepSite: protein-binding site predictor using 3D-convolutional neural networks. - José Jiménez; Stefan Doerr; Gerard Martínez-Rosell; Alexander S. Rose; Gianni De Fabritiis (Bioinform., 2017)

A fragment based method for modeling of protein segments into cryo-EM density maps. - Jochen Ismer; Alexander S. Rose; Johanna K. S. Tiemann; Peter W. Hildebrand (BMC Bioinform., 2017)

The RCSB protein data bank: integrative view of protein, gene and 3D structural information. - Peter W. Rose; Andreas Prlic; Ali Altunkaya; Chunxiao Bi; Anthony R. Bradley; Cole H. Christie; Luigi Di Costanzo; Jose M. Duarte; Shuchismita Dutta; Zukang Feng; Rachel Kramer Green; David S. Goodsell; et al. (Nucleic Acids Res., 2017)

MMTF - An efficient file format for the transmission, visualization, and analysis of macromolecular structures. - Anthony R. Bradley; Alexander S. Rose; Antonín Pavelka; Yana Valasatava; Jose M. Duarte; Andreas Prlic; Peter W. Rose (PLoS Comput. Biol., 2017)

Mol*: Towards a Common Library and Tools for Web Molecular Graphics. - David Sehnal; Alexander S. Rose; Jaroslav Koca; Stephen K. Burley; Sameer Velankar (MolVa@EuroVis, 2018)

NGLview-interactive molecular graphics for Jupyter notebooks. - Hai Nguyen; David A. Case; Alexander S. Rose (Bioinform., 2018)

NGL viewer: web-based molecular graphics for large complexes. - Alexander S. Rose; Anthony R. Bradley; Yana Valasatava; Jose M. Duarte; Andreas Prlic; Peter W. Rose (Bioinform., 2018)

FragFit: a web-application for interactive modeling of protein segments into cryo-EM density maps. - Johanna K. S. Tiemann; Alexander S. Rose; Jochen Ismer; Mitra D. Darvish; Tarek Hilal; Christian M. T. Spahn; Peter W. Hildebrand (Nucleic Acids Res., 2018)

RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy. - Stephen K. Burley; Helen M. Berman; Charmi Bhikadiya; Chunxiao Bi; Li Chen 022; Luigi Di Costanzo; Cole H. Christie; Kenneth Dalenberg; Jose M. Duarte; Shuchismita Dutta; Zukang Feng; Sutapa Ghosh; et al. (Nucleic Acids Res., 2019)

Real-time structural motif searching in proteins using an inverted index strategy. - Sebastian Bittrich; Stephen K. Burley; Alexander S. Rose (PLoS Comput. Biol., 2020)

BinaryCIF and CIFTools - Lightweight, efficient and extensible macromolecular data management. - David Sehnal; Sebastian Bittrich; Sameer Velankar; Jaroslav Koca; Radka Svobodová Vareková; Stephen K. Burley; Alexander S. Rose (PLoS Comput. Biol., 2020)

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)

RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. - Stephen K. Burley; Charmi Bhikadiya; Chunxiao Bi; Sebastian Bittrich; Li Chen 022; Gregg V. Crichlow; Cole H. Christie; Kenneth Dalenberg; Luigi Di Costanzo; Jose M. Duarte; Shuchismita Dutta; Zukang Feng; et al. (Nucleic Acids Res., 2021)

Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures. - David Sehnal; Sebastian Bittrich; Mandar S. Deshpande; Radka Svobodová Vareková; Karel Berka; Václav Bazgier; Sameer Velankar; Stephen K. Burley; Jaroslav Koca; Alexander S. Rose (Nucleic Acids Res., 2021)

MDsrv: visual sharing and analysis of molecular dynamics simulations. - Michelle Kampfrath; René Staritzbichler; Guillermo Pérez Hernández; Alexander S. Rose; Johanna K. S. Tiemann; Gerik Scheuermann; Daniel Wiegreffe; Peter W. Hildebrand (Nucleic Acids Res., 2022)

Mol* Volumes and Segmentations: visualization and interpretation of cell imaging data alongside macromolecular structure data and biological annotations. - Aliaksei Chareshneu; Adam Midlik; Crina-Maria Ionescu; Alexander S. Rose; Vladimír Horský; Alessio Cantara; Radka Svobodová Vareková; Karel Berka; David Sehnal (Nucleic Acids Res., 2023)