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Macromolecular modeling and design in Rosetta: recent methods and frameworks.
Nat Methods. 2020 Jul;17(7):665-680. doi: 10.1038/s41592-020-0848-2. Epub 2020 Jun 1.
Nat Methods. 2020.
PMID: 32483333
Free PMC article.
Review.
High-accuracy modeling of antibody structures by a search for minimum-energy recombination of backbone fragments.
Norn CH, Lapidoth G, Fleishman SJ.
Norn CH, et al. Among authors: lapidoth g.
Proteins. 2017 Jan;85(1):30-38. doi: 10.1002/prot.25185. Epub 2016 Oct 24.
Proteins. 2017.
PMID: 27717001
Free PMC article.
Item in Clipboard
AbDesign: An algorithm for combinatorial backbone design guided by natural conformations and sequences.
Lapidoth GD, Baran D, Pszolla GM, Norn C, Alon A, Tyka MD, Fleishman SJ.
Lapidoth GD, et al.
Proteins. 2015 Aug;83(8):1385-406. doi: 10.1002/prot.24779. Epub 2015 Jun 6.
Proteins. 2015.
PMID: 25670500
Free PMC article.
Item in Clipboard
Principles for computational design of binding antibodies.
Baran D, Pszolla MG, Lapidoth GD, Norn C, Dym O, Unger T, Albeck S, Tyka MD, Fleishman SJ.
Baran D, et al. Among authors: lapidoth gd.
Proc Natl Acad Sci U S A. 2017 Oct 10;114(41):10900-10905. doi: 10.1073/pnas.1707171114. Epub 2017 Sep 25.
Proc Natl Acad Sci U S A. 2017.
PMID: 28973872
Free PMC article.
Item in Clipboard
Highly active enzymes by automated combinatorial backbone assembly and sequence design.
Lapidoth G, Khersonsky O, Lipsh R, Dym O, Albeck S, Rogotner S, Fleishman SJ.
Lapidoth G, et al.
Nat Commun. 2018 Jul 17;9(1):2780. doi: 10.1038/s41467-018-05205-5.
Nat Commun. 2018.
PMID: 30018322
Free PMC article.
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AbPredict 2: a server for accurate and unstrained structure prediction of antibody variable domains.
Lapidoth G, Parker J, Prilusky J, Fleishman SJ.
Lapidoth G, et al.
Bioinformatics. 2019 May 1;35(9):1591-1593. doi: 10.1093/bioinformatics/bty822.
Bioinformatics. 2019.
PMID: 30951584
Free PMC article.
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Improved antibody-based ricin neutralization by affinity maturation is correlated with slower off-rate values.
Rosenfeld R, Alcalay R, Mechaly A, Lapidoth G, Epstein E, Kronman C, J Fleishman S, Mazor O.
Rosenfeld R, et al. Among authors: lapidoth g.
Protein Eng Des Sel. 2017 Sep 1;30(9):611-617. doi: 10.1093/protein/gzx028.
Protein Eng Des Sel. 2017.
PMID: 28472478
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Context-dependent design of induced-fit enzymes using deep learning generates well-expressed, thermally stable and active enzymes.
Zimmerman L, Alon N, Levin I, Koganitsky A, Shpigel N, Brestel C, Lapidoth GD.
Zimmerman L, et al. Among authors: lapidoth gd.
Proc Natl Acad Sci U S A. 2024 Mar 12;121(11):e2313809121. doi: 10.1073/pnas.2313809121. Epub 2024 Mar 4.
Proc Natl Acad Sci U S A. 2024.
PMID: 38437538
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