Thijs Beuming

Publication Activity (10 Years)

Years Active: 2004-2023
Publications (10 Years): 6

Top Topics

Virtual Screening

Protein Homology

Structural Model

Top Venues

J. Chem. Inf. Model.

J. Comput. Aided Mol. Des.

Publications

Anna M. Díaz-Rovira, Helena Martín, Thijs Beuming, Lucía Díaz, Victor Guallar, Soumya S. Ray
Are Deep Learning Structural Models Sufficiently Accurate for Virtual Screening? Application of Docking Algorithms to AlphaFold2 Predicted Structures. J. Chem. Inf. Model. 63 (6) (2023)
Thijs Beuming, Helena Martín, Anna M. Díaz-Rovira, Lucía Díaz, Victor Guallar, Soumya S. Ray
Are Deep Learning Structural Models Sufficiently Accurate for Free-Energy Calculations? Application of FEP+ to AlphaFold2-Predicted Structures. J. Chem. Inf. Model. 62 (18) (2022)
Zoe Cournia, Bryce K. Allen, Thijs Beuming, David A. Pearlman, Brian K. Radak, Woody Sherman
Rigorous Free Energy Simulations in Virtual Screening. J. Chem. Inf. Model. 60 (9) (2020)
Phani Ghanakota, Herman van Vlijmen, Woody Sherman, Thijs Beuming
Large-Scale Validation of Mixed-Solvent Simulations to Assess Hotspots at Protein-Protein Interaction Interfaces. J. Chem. Inf. Model. 58 (4) (2018)
Eelke B. Lenselink, Thijs Beuming, Corine van Veen, Arnault Massink, Woody Sherman, Herman W. T. van Vlijmen, Adriaan P. IJzerman
In search of novel ligands using a structure-based approach: a case study on the adenosine A2A receptor. J. Comput. Aided Mol. Des. 30 (10) (2016)
Daniel Cappel, Michelle Lynn Hall, Eelke B. Lenselink, Thijs Beuming, Jun Qi, James Bradner, Woody Sherman
Relative Binding Free Energy Calculations Applied to Protein Homology Models. J. Chem. Inf. Model. 56 (12) (2016)
Eelke B. Lenselink, Thijs Beuming, Woody Sherman, Herman W. T. van Vlijmen, Adriaan P. IJzerman
Receptor. J. Chem. Inf. Model. 54 (6) (2014)
Anat Levit, Thijs Beuming, Goran Krilov, Woody Sherman, Masha Y. Niv
Predicting GPCR Promiscuity Using Binding Site Features. J. Chem. Inf. Model. 54 (1) (2014)
Daniele Pala, Thijs Beuming, Woody Sherman, Alessio Lodola, Silvia Rivara, Marco Mor
Melatonin Receptor: Influence of Template Choice and Structural Refinement. J. Chem. Inf. Model. 53 (4) (2013)
Ivan Tubert-Brohman, Woody Sherman, Matthew P. Repasky, Thijs Beuming
Improved Docking of Polypeptides with Glide. J. Chem. Inf. Model. 53 (7) (2013)
Thijs Beuming, Woody Sherman
Current Assessment of Docking into GPCR Crystal Structures and Homology Models: Successes, Challenges, and Guidelines. J. Chem. Inf. Model. 52 (12) (2012)
Lei Shi, Marko Srdanovic, Thijs Beuming, Lucy Skrabanek, Jonathan A. Javitch, Harel Weinstein
TRAC: A Platform for Structure-Function Studies of NSS-Proteins Integrates Information from Bioinformatics and Biomedical Literature. BIBE (2010)
Thijs Beuming, Lucy Skrabanek, Masha Y. Niv, Piali Mukherjee, Harel Weinstein
PDZBase: a protein?Cprotein interaction database for PDZ-domains. Bioinform. 21 (6) (2005)
Thijs Beuming, Harel Weinstein
A knowledge-based scale for the analysis and prediction of buried and exposed faces of transmembrane domain proteins. Bioinform. 20 (12) (2004)