Dima Kozakov
Orcid: 0000-0003-0464-4500
According to our database1,
Dima Kozakov
authored at least 31 papers
between 2008 and 2024.
Collaborative distances:
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Bibliography
2024
J. Chem. Inf. Model., 2024
2023
Numerically stable algorithm for Inverse Kinematics of 6R problem and its applications to macrocycles.
Proceedings of the 14th ACM International Conference on Bioinformatics, 2023
2022
J. Chem. Inf. Model., 2022
2020
Benchmark Sets for Binding Hot Spot Identification in Fragment-Based Ligand Discovery.
J. Chem. Inf. Model., 2020
Sampling and refinement protocols for template-based macrocycle docking: 2018 D3R Grand Challenge 4.
J. Comput. Aided Mol. Des., 2020
2019
Monte Carlo on the manifold and MD refinement for binding pose prediction of protein-ligand complexes: 2017 D3R Grand Challenge.
J. Comput. Aided Mol. Des., 2019
2018
J. Comput. Aided Mol. Des., 2018
2017
High-resolution global peptide-protein docking using fragments-based PIPER-FlexPepDock.
PLoS Comput. Biol., 2017
Bioinform., 2017
2016
J. Comput. Chem., 2016
Bioinform., 2016
2015
J. Chem. Inf. Model., 2015
Accounting for observed small angle X-ray scattering profile in the protein-protein docking server cluspro.
J. Comput. Chem., 2015
2014
Evidence of Conformational Selection Driving the Formation of Ligand Binding Sites in Protein-Protein Interfaces.
PLoS Comput. Biol., 2014
J. Chem. Inf. Model., 2014
Optimization on the space of rigid and flexible motions: An alternative manifold optimization approach.
Proceedings of the 53rd IEEE Conference on Decision and Control, 2014
A Subspace Semi-Definite programming-based Underestimation (SSDU) method for stochastic global optimization in protein docking.
Proceedings of the 53rd IEEE Conference on Decision and Control, 2014
2013
FTFlex: accounting for binding site flexibility to improve fragment-based identification of druggable hot spots.
Bioinform., 2013
A new distributed algorithm for side-chain positioning in the process of protein docking.
Proceedings of the 52nd IEEE Conference on Decision and Control, 2013
Proceedings of the 52nd IEEE Conference on Decision and Control, 2013
2012
Nucleic Acids Res., 2012
Relationship between Hot Spot Residues and Ligand Binding Hot Spots in Protein-Protein Interfaces.
J. Chem. Inf. Model., 2012
Hot Spot Analysis for Driving the Development of Hits into Leads in Fragment-Based Drug Discovery.
J. Chem. Inf. Model., 2012
FTSite: high accuracy detection of ligand binding sites on unbound protein structures.
Bioinform., 2012
Bioinform., 2012
A message passing approach to Side Chain Positioning with applications in protein docking refinement.
Proceedings of the 51th IEEE Conference on Decision and Control, 2012
Proceedings of the 51th IEEE Conference on Decision and Control, 2012
2009
Detection of ligand binding hot spots on protein surfaces via fragment-based methods: application to DJ-1 and glucocerebrosidase.
J. Comput. Aided Mol. Des., 2009
Fragment-based identification of druggable 'hot spots' of proteins using Fourier domain correlation techniques.
Bioinform., 2009
2008
Accelerating and focusing protein-protein docking correlations using multi-dimensional rotational FFT generating functions.
Bioinform., 2008
Clustering versus Scoring for the Identification of Near-Native Poses in Protein-Ligand Docking.
Proceedings of the International Conference on Bioinformatics & Computational Biology, 2008