Alexander S. Rose

According to our database, Alexander S. Rose authored at least 24 papers between 2009 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

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., July, 2023

2022

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

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

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, Gregg V. Crichlow, Cole H. Christie, Kenneth Dalenberg, Luigi Di Costanzo, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Sai Ganesan, David S. Goodsell, Sutapa Ghosh, Rachel Kramer Green, Vladimir Guranovic, Dmytro Guzenko, Brian P. Hudson, Catherine L. Lawson, Yuhe Liang, Robert Lowe, Harry Namkoong, Ezra Peisach, Irina Persikova, Christopher Randle, Alexander S. Rose, Yana Rose, Andrej Sali, Joan Segura, Monica Sekharan, Chenghua Shao, Yi-Ping Tao, Maria Voigt, John D. Westbrook, Jasmine Young, Christine Zardecki, Marina Zhuravleva

Nucleic Acids Res., 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

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

Real-time structural motif searching in proteins using an inverted index strategy.

Sebastian Bittrich, Stephen K. Burley, Alexander S. Rose

PLoS Comput. Biol., 2020

2019

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, Luigi Di Costanzo, Cole H. Christie, Kenneth Dalenberg, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranovic, Dmytro Guzenko, Brian P. Hudson, Tara Kalro, Yuhe Liang, Robert Lowe, Harry Namkoong, Ezra Peisach, Irina Periskova, Andreas Prlic, Christopher Randle, Alexander S. Rose, Peter W. Rose, Raul Sala, Monica Sekharan, Chenghua Shao, Lihua Tan, Yi-Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jesse Woo, Huanwang Yang, Jasmine Young, Marina Zhuravleva, Christine Zardecki

Nucleic Acids Res., 2019

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

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

NGLview-interactive molecular graphics for Jupyter notebooks.

Hai Nguyen, David A. Case, Alexander S. Rose

Bioinform., 2018

Mol*: Towards a Common Library and Tools for Web Molecular Graphics.

David Sehnal, Alexander S. Rose, Jaroslav Koca, Stephen K. Burley, Sameer Velankar

Proceedings of the 1st Workshop on Molecular Graphics and Visual Analysis of Molecular Data, 2018

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

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, Brian P. Hudson, Tara Kalro, Robert Lowe, Ezra Peisach, Christopher Randle, Alexander S. Rose, Chenghua Shao, Yi-Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jesse Woo, Huanwang Yang, Jasmine Young, Christine Zardecki, Helen M. Berman, Stephen K. Burley

Nucleic Acids Res., 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

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

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

Proceedings of the 19th Eurographics Conference on Visualization, 2017

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

Web-based molecular graphics for large complexes.

Alexander S. Rose, Anthony R. Bradley, Yana Valasatava, Jose M. Duarte, Andreas Prlic, Peter W. Rose

Proceedings of the 21st International Conference on Web3D Technology, 2016

2015

NGL Viewer: a web application for molecular visualization.

Alexander S. Rose, Peter W. Hildebrand

Nucleic Acids Res., 2015

2014

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

2013

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

2010

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

2009

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