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Author Details

Dima Kozakov
Stony Brook University
2005
123
42
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36088633Mapping of antibody epitopes based on docking and homology modeling.Proteins2023
36088633Mapping of antibody epitopes based on docking and homology modeling.Proteins2023
37663788Improved prediction of MHC-peptide binding using protein language models.Front Bioinform2023
37905971Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment.Proteins2023
38089059Integrated metabolomics and proteomics reveal biomarkers associated with hemodialysis in end-stage kidney disease.Front Pharmacol2023
38077000MHC-Fine: Fine-tuned AlphaFold for Precise MHC-Peptide Complex Prediction.bioRxiv2023
37697630Accurate ligand-protein docking in CASP15 using the ClusPro LigTBM server.Proteins2023
36580595Opinion: Protein folds vs. protein folding: Differing questions, different challenges.Proc Natl Acad Sci U S A2023
36961978High Accuracy Prediction of PROTAC Complex Structures.J Am Chem Soc2023
36755019Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT.Nat Commun2023
36626764Critical Assessment of Methods for Predicting the 3D Structure of Proteins and Protein Complexes.Annu Rev Biophys2023
37188806The ClusPro AbEMap web server for the prediction of antibody epitopes.Nat Protoc2023
38077000MHC-Fine: Fine-tuned AlphaFold for Precise MHC-Peptide Complex Prediction.bioRxiv2023
37663788Improved prediction of MHC-peptide binding using protein language models.Front Bioinform2023
37905971Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment.Proteins2023
37697630Accurate ligand-protein docking in CASP15 using the ClusPro LigTBM server.Proteins2023
38089059Integrated metabolomics and proteomics reveal biomarkers associated with hemodialysis in end-stage kidney disease.Front Pharmacol2023
37188806The ClusPro AbEMap web server for the prediction of antibody epitopes.Nat Protoc2023
36961978High Accuracy Prediction of PROTAC Complex Structures.J Am Chem Soc2023
36626764Critical Assessment of Methods for Predicting the 3D Structure of Proteins and Protein Complexes.Annu Rev Biophys2023
36580595Opinion: Protein folds vs. protein folding: Differing questions, different challenges.Proc Natl Acad Sci U S A2023
36755019Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT.Nat Commun2023
35234141A simple technique to classify diffraction data from dynamic proteins according to individual polymorphs.Acta Crystallogr D Struct Biol2022
35647916Elucidation of protein function using computational docking and hotspot analysis by ClusPro and FTMap.Acta Crystallogr D Struct Biol2022
35831314Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery.Nat Commun2022
35636004Mapping the binding sites of challenging drug targets.Curr Opin Struct Biol2022
36065962Light-mediated multi-target protein degradation using arylazopyrazole photoswitchable PROTACs (AP-PROTACs).Chem Commun (Camb)2022
36195573Conservation of Allosteric Ligand Binding Sites in G-Protein Coupled Receptors.J Chem Inf Model2022
35662465FTMove: A Web Server for Detection and Analysis of Cryptic and Allosteric Binding Sites by Mapping Multiple Protein Structures.J Mol Biol2022
36568682API Development Increases Access to Shared Computing Resources at Boston University.J Softw Eng Appl2022
36699363AbAdapt: an adaptive approach to predicting antibody-antigen complex structures from sequence.Bioinform Adv2022
35234141A simple technique to classify diffraction data from dynamic proteins according to individual polymorphs.Acta Crystallogr D Struct Biol2022
34890135Side-chain Packing Using SE(3)-Transformer.Pac Symp Biocomput2022
35647916Elucidation of protein function using computational docking and hotspot analysis by ClusPro and FTMap.Acta Crystallogr D Struct Biol2022
35831314Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery.Nat Commun2022
35636004Mapping the binding sites of challenging drug targets.Curr Opin Struct Biol2022
35662465FTMove: A Web Server for Detection and Analysis of Cryptic and Allosteric Binding Sites by Mapping Multiple Protein Structures.J Mol Biol2022
36568682API Development Increases Access to Shared Computing Resources at Boston University.J Softw Eng Appl2022
36699363AbAdapt: an adaptive approach to predicting antibody-antigen complex structures from sequence.Bioinform Adv2022
36065962Light-mediated multi-target protein degradation using arylazopyrazole photoswitchable PROTACs (AP-PROTACs).Chem Commun (Camb)2022
36195573Conservation of Allosteric Ligand Binding Sites in G-Protein Coupled Receptors.J Chem Inf Model2022
34890135Side-chain Packing Using SE(3)-Transformer.Pac Symp Biocomput2022
33417854Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2.Mol Cell2021
34212944A critical overview of computational approaches employed for COVID-19 drug discovery.Chem Soc Rev2021
33995918Improved cluster ranking in protein-protein docking using a regression approach.Comput Struct Biotechnol J2021
33610066Progress toward improved understanding of antibody maturation.Curr Opin Struct Biol2021
34025942Conservation of binding properties in protein models.Comput Struct Biotechnol J2021
33417854Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2.Mol Cell2021
34368994Assessing the binding properties of CASP14 targets and models.Proteins2021
33610066Progress toward improved understanding of antibody maturation.Curr Opin Struct Biol2021
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The Second Affiliated Hospital of Nanchang University
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Universite de Lorraine, CNRS
Co-authored papers 5
Paul A Bates
The Francis Crick Institute
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Daron M Standley
Osaka university
Co-authored papers 5
Juan Fern??ndez-Recio
Instituto de Ciencias de la Vid y del Vino (ICVV-CSIC)
Co-authored papers 5
Brian Jim??nez-Garc??a
Utrecht University
Co-authored papers 5
Lingqi Luo
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Iain H Moal
GSK Medicines Research Centre
Co-authored papers 4
Sheng-You Huang
Huazhong University of Science and Technology
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Andrew Emili
Boston University School of Medicine, Boston University
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Daisuke Kihara
Purdue University
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