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Year Number of Results
2006 1
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2012 3
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2014 5
2015 2
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19 results

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Page 1
Improved cluster ranking in protein-protein docking using a regression approach.
Sotudian S, Desta IT, Hashemi N, Zarbafian S, Kozakov D, Vakili P, Vajda S, Paschalidis IC. Sotudian S, et al. Among authors: vakili p. Comput Struct Biotechnol J. 2021 Apr 20;19:2269-2278. doi: 10.1016/j.csbj.2021.04.028. eCollection 2021. Comput Struct Biotechnol J. 2021. PMID: 33995918 Free PMC article.
Improved prediction of MHC-peptide binding using protein language models.
Hashemi N, Hao B, Ignatov M, Paschalidis IC, Vakili P, Vajda S, Kozakov D. Hashemi N, et al. Among authors: vakili p. Front Bioinform. 2023 Aug 17;3:1207380. doi: 10.3389/fbinf.2023.1207380. eCollection 2023. Front Bioinform. 2023. PMID: 37663788 Free PMC article.
Focused grid-based resampling for protein docking and mapping.
Mamonov AB, Moghadasi M, Mirzaei H, Zarbafian S, Grove LE, Bohnuud T, Vakili P, Ch Paschalidis I, Vajda S, Kozakov D. Mamonov AB, et al. Among authors: vakili p. J Comput Chem. 2016 Apr 30;37(11):961-70. doi: 10.1002/jcc.24273. Epub 2016 Feb 2. J Comput Chem. 2016. PMID: 26837000 Free PMC article.
Energy Minimization on Manifolds for Docking Flexible Molecules.
Mirzaei H, Zarbafian S, Villar E, Mottarella S, Beglov D, Vajda S, Paschalidis ICh, Vakili P, Kozakov D. Mirzaei H, et al. Among authors: vakili p. J Chem Theory Comput. 2015 Mar 10;11(3):1063-76. doi: 10.1021/ct500155t. J Chem Theory Comput. 2015. PMID: 26478722 Free PMC article.
Flexible Refinement of Protein-Ligand Docking on Manifolds.
Mirzaei H, Villar E, Mottarella S, Beglov D, Paschalidis IC, Vajda S, Kozakov D, Vakili P. Mirzaei H, et al. Among authors: vakili p. Proc IEEE Conf Decis Control. 2013:1392-1397. doi: 10.1109/CDC.2013.6760077. Proc IEEE Conf Decis Control. 2013. PMID: 24830567 Free PMC article.
The impact of side-chain packing on protein docking refinement.
Moghadasi M, Mirzaei H, Mamonov A, Vakili P, Vajda S, Paschalidis ICh, Kozakov D. Moghadasi M, et al. Among authors: vakili p. J Chem Inf Model. 2015 Apr 27;55(4):872-81. doi: 10.1021/ci500380a. Epub 2015 Mar 24. J Chem Inf Model. 2015. PMID: 25714358 Free PMC article.
Rigid Body Energy Minimization on Manifolds for Molecular Docking.
Mirzaei H, Beglov D, Paschalidis IC, Vajda S, Vakili P, Kozakov D. Mirzaei H, et al. Among authors: vakili p. J Chem Theory Comput. 2012 Nov 13;8(11):4374-4380. doi: 10.1021/ct300272j. Epub 2012 Aug 21. J Chem Theory Comput. 2012. PMID: 23382659 Free PMC article.
19 results