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Accurate computational design of three-dimensional protein crystals.
Li Z, Wang S, Nattermann U, Bera AK, Borst AJ, Yaman MY, Bick MJ, Yang EC, Sheffler W, Lee B, Seifert S, Hura GL, Nguyen H, Kang A, Dalal R, Lubner JM, Hsia Y, Haddox H, Courbet A, Dowling Q, Miranda M, Favor A, Etemadi A, Edman NI, Yang W, Weidle C, Sankaran B, Negahdari B, Ross MB, Ginger DS, Baker D. Li Z, et al. Among authors: yang ec. Nat Mater. 2023 Dec;22(12):1556-1563. doi: 10.1038/s41563-023-01683-1. Epub 2023 Oct 16. Nat Mater. 2023. PMID: 37845322
Fast and versatile sequence-independent protein docking for nanomaterials design using RPXDock.
Sheffler W, Yang EC, Dowling Q, Hsia Y, Fries CN, Stanislaw J, Langowski MD, Brandys M, Li Z, Skotheim R, Borst AJ, Khmelinskaia A, King NP, Baker D. Sheffler W, et al. Among authors: yang ec. PLoS Comput Biol. 2023 May 22;19(5):e1010680. doi: 10.1371/journal.pcbi.1010680. eCollection 2023 May. PLoS Comput Biol. 2023. PMID: 37216343 Free PMC article.
Rapid and automated design of two-component protein nanomaterials using ProteinMPNN.
de Haas RJ, Brunette N, Goodson A, Dauparas J, Yi SY, Yang EC, Dowling Q, Nguyen H, Kang A, Bera AK, Sankaran B, de Vries R, Baker D, King NP. de Haas RJ, et al. Among authors: yang ec. bioRxiv [Preprint]. 2023 Aug 4:2023.08.04.551935. doi: 10.1101/2023.08.04.551935. bioRxiv. 2023. PMID: 37577478 Free PMC article. Updated. Preprint.
Computational design of non-porous pH-responsive antibody nanoparticles.
Yang EC, Divine R, Miranda MC, Borst AJ, Sheffler W, Zhang JZ, Decarreau J, Saragovi A, Abedi M, Goldbach N, Ahlrichs M, Dobbins C, Hand A, Cheng S, Lamb M, Levine PM, Chan S, Skotheim R, Fallas J, Ueda G, Lubner J, Somiya M, Khmelinskaia A, King NP, Baker D. Yang EC, et al. Nat Struct Mol Biol. 2024 May 9. doi: 10.1038/s41594-024-01288-5. Online ahead of print. Nat Struct Mol Biol. 2024. PMID: 38724718
Rapid and automated design of two-component protein nanomaterials using ProteinMPNN.
de Haas RJ, Brunette N, Goodson A, Dauparas J, Yi SY, Yang EC, Dowling Q, Nguyen H, Kang A, Bera AK, Sankaran B, de Vries R, Baker D, King NP. de Haas RJ, et al. Among authors: yang ec. Proc Natl Acad Sci U S A. 2024 Mar 26;121(13):e2314646121. doi: 10.1073/pnas.2314646121. Epub 2024 Mar 19. Proc Natl Acad Sci U S A. 2024. PMID: 38502697 Free PMC article.
Blueprinting extendable nanomaterials with standardized protein blocks.
Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, Redler R, Leung PJY, Weidle C, Courbet A, Yang EC, Bera AK, Coudray N, Calise SJ, Davila-Hernandez FA, Han HL, Carr KD, Li Z, McHugh R, Reggiano G, Kang A, Sankaran B, Dickinson MS, Coventry B, Brunette TJ, Liu Y, Dauparas J, Borst AJ, Ekiert D, Kollman JM, Bhabha G, Baker D. Huddy TF, et al. Among authors: yang ec. Nature. 2024 Mar;627(8005):898-904. doi: 10.1038/s41586-024-07188-4. Epub 2024 Mar 13. Nature. 2024. PMID: 38480887 Free PMC article.
218 results