Stefan Bienert, Andrew Waterhouse, Tjaart A P de Beer, Gerardo Tauriello, Gabriel Studer, Lorenza Bordoli, Torsten Schwede. Nucleic Acids Res 2017
Times Cited: 752
Times Cited: 752
Times Cited
Times Co-cited
Similarity
SWISS-MODEL: homology modelling of protein structures and complexes.
Andrew Waterhouse, Martino Bertoni, Stefan Bienert, Gabriel Studer, Gerardo Tauriello, Rafal Gumienny, Florian T Heer, Tjaart A P de Beer, Christine Rempfer, Lorenza Bordoli,[...]. Nucleic Acids Res 2018
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Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: a historical perspective.
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Modeling protein quaternary structure of homo- and hetero-oligomers beyond binary interactions by homology.
Martino Bertoni, Florian Kiefer, Marco Biasini, Lorenza Bordoli, Torsten Schwede. Sci Rep 2017
Martino Bertoni, Florian Kiefer, Marco Biasini, Lorenza Bordoli, Torsten Schwede. Sci Rep 2017
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UCSF Chimera--a visualization system for exploratory research and analysis.
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Highly accurate protein structure prediction with AlphaFold.
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QMEANDisCo-distance constraints applied on model quality estimation.
Gabriel Studer, Christine Rempfer, Andrew M Waterhouse, Rafal Gumienny, Juergen Haas, Torsten Schwede. Bioinformatics 2020
Gabriel Studer, Christine Rempfer, Andrew M Waterhouse, Rafal Gumienny, Juergen Haas, Torsten Schwede. Bioinformatics 2020
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Toward the estimation of the absolute quality of individual protein structure models.
Pascal Benkert, Marco Biasini, Torsten Schwede. Bioinformatics 2011
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AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading.
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The Protein Data Bank.
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STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets.
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Cytoscape: a software environment for integrated models of biomolecular interaction networks.
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AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models.
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5
ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins.
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Highly accurate protein structure prediction for the human proteome.
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5
pkCSM: Predicting Small-Molecule Pharmacokinetic and Toxicity Properties Using Graph-Based Signatures.
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SignalP 5.0 improves signal peptide predictions using deep neural networks.
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BLAST+: architecture and applications.
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H++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations.
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4
The mutational constraint spectrum quantified from variation in 141,456 humans.
Konrad J Karczewski, Laurent C Francioli, Grace Tiao, Beryl B Cummings, Jessica Alföldi, Qingbo Wang, Ryan L Collins, Kristen M Laricchia, Andrea Ganna, Daniel P Birnbaum,[...]. Nature 2020
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The FoldX web server: an online force field.
Joost Schymkowitz, Jesper Borg, Francois Stricher, Robby Nys, Frederic Rousseau, Luis Serrano. Nucleic Acids Res 2005
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4
ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules.
Haim Ashkenazy, Shiran Abadi, Eric Martz, Ofer Chay, Itay Mayrose, Tal Pupko, Nir Ben-Tal. Nucleic Acids Res 2016
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4
The Phyre2 web portal for protein modeling, prediction and analysis.
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4
GROMACS: fast, flexible, and free.
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David Van Der Spoel, Erik Lindahl, Berk Hess, Gerrit Groenhof, Alan E Mark, Herman J C Berendsen. J Comput Chem 2005
3
Structure of Mpro from SARS-CoV-2 and discovery of its inhibitors.
Zhenming Jin, Xiaoyu Du, Yechun Xu, Yongqiang Deng, Meiqin Liu, Yao Zhao, Bing Zhang, Xiaofeng Li, Leike Zhang, Chao Peng,[...]. Nature 2020
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3
SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor.
Markus Hoffmann, Hannah Kleine-Weber, Simon Schroeder, Nadine Krüger, Tanja Herrler, Sandra Erichsen, Tobias S Schiergens, Georg Herrler, Nai-Huei Wu, Andreas Nitsche,[...]. Cell 2020
Markus Hoffmann, Hannah Kleine-Weber, Simon Schroeder, Nadine Krüger, Tanja Herrler, Sandra Erichsen, Tobias S Schiergens, Georg Herrler, Nai-Huei Wu, Andreas Nitsche,[...]. Cell 2020
3
Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor.
Jun Lan, Jiwan Ge, Jinfang Yu, Sisi Shan, Huan Zhou, Shilong Fan, Qi Zhang, Xuanling Shi, Qisheng Wang, Linqi Zhang,[...]. Nature 2020
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3
CB-Dock: a web server for cavity detection-guided protein-ligand blind docking.
Yang Liu, Maximilian Grimm, Wen-Tao Dai, Mu-Chun Hou, Zhi-Xiong Xiao, Yang Cao. Acta Pharmacol Sin 2020
Yang Liu, Maximilian Grimm, Wen-Tao Dai, Mu-Chun Hou, Zhi-Xiong Xiao, Yang Cao. Acta Pharmacol Sin 2020
3
The RING 2.0 web server for high quality residue interaction networks.
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Damiano Piovesan, Giovanni Minervini, Silvio C E Tosatto. Nucleic Acids Res 2016
3
CHARMM: the biomolecular simulation program.
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DrugBank 5.0: a major update to the DrugBank database for 2018.
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Open Babel: An open chemical toolbox.
Noel M O'Boyle, Michael Banck, Craig A James, Chris Morley, Tim Vandermeersch, Geoffrey R Hutchison. J Cheminform 2011
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A simple method for displaying the hydropathic character of a protein.
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HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment.
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3
Extra precision glide: docking and scoring incorporating a model of hydrophobic enclosure for protein-ligand complexes.
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Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega.
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3
A method and server for predicting damaging missense mutations.
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ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB.
James A Maier, Carmenza Martinez, Koushik Kasavajhala, Lauren Wickstrom, Kevin E Hauser, Carlos Simmerling. J Chem Theory Comput 2015
James A Maier, Carmenza Martinez, Koushik Kasavajhala, Lauren Wickstrom, Kevin E Hauser, Carlos Simmerling. J Chem Theory Comput 2015
3
Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.