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Year Number of Results
2019 2
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23 results

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Page 1
Accurate prediction of protein structures and interactions using a three-track neural network.
Baek M, DiMaio F, Anishchenko I, Dauparas J, Ovchinnikov S, Lee GR, Wang J, Cong Q, Kinch LN, Schaeffer RD, Millán C, Park H, Adams C, Glassman CR, DeGiovanni A, Pereira JH, Rodrigues AV, van Dijk AA, Ebrecht AC, Opperman DJ, Sagmeister T, Buhlheller C, Pavkov-Keller T, Rathinaswamy MK, Dalwadi U, Yip CK, Burke JE, Garcia KC, Grishin NV, Adams PD, Read RJ, Baker D. Baek M, et al. Science. 2021 Aug 20;373(6557):871-876. doi: 10.1126/science.abj8754. Epub 2021 Jul 15. Science. 2021. PMID: 34282049 Free PMC article.
ColabFold: making protein folding accessible to all.
Mirdita M, Schütze K, Moriwaki Y, Heo L, Ovchinnikov S, Steinegger M. Mirdita M, et al. Nat Methods. 2022 Jun;19(6):679-682. doi: 10.1038/s41592-022-01488-1. Epub 2022 May 30. Nat Methods. 2022. PMID: 35637307 Free PMC article.
Scaffolding protein functional sites using deep learning.
Wang J, Lisanza S, Juergens D, Tischer D, Watson JL, Castro KM, Ragotte R, Saragovi A, Milles LF, Baek M, Anishchenko I, Yang W, Hicks DR, Expòsit M, Schlichthaerle T, Chun JH, Dauparas J, Bennett N, Wicky BIM, Muenks A, DiMaio F, Correia B, Ovchinnikov S, Baker D. Wang J, et al. Science. 2022 Jul 22;377(6604):387-394. doi: 10.1126/science.abn2100. Epub 2022 Jul 21. Science. 2022. PMID: 35862514 Free PMC article.
Scalable protein design using optimization in a relaxed sequence space.
Frank C, Khoshouei A, Fuβ L, Schiwietz D, Putz D, Weber L, Zhao Z, Hattori M, Feng S, de Stigter Y, Ovchinnikov S, Dietz H. Frank C, et al. Science. 2024 Oct 25;386(6720):439-445. doi: 10.1126/science.adq1741. Epub 2024 Oct 24. Science. 2024. PMID: 39446959 Free PMC article.
Computational design of soluble and functional membrane protein analogues.
Goverde CA, Pacesa M, Goldbach N, Dornfeld LJ, Balbi PEM, Georgeon S, Rosset S, Kapoor S, Choudhury J, Dauparas J, Schellhaas C, Kozlov S, Baker D, Ovchinnikov S, Vecchio AJ, Correia BE. Goverde CA, et al. Nature. 2024 Jul;631(8020):449-458. doi: 10.1038/s41586-024-07601-y. Epub 2024 Jun 19. Nature. 2024. PMID: 38898281 Free PMC article.
Unraveling the functional dark matter through global metagenomics.
Pavlopoulos GA, Baltoumas FA, Liu S, Selvitopi O, Camargo AP, Nayfach S, Azad A, Roux S, Call L, Ivanova NN, Chen IM, Paez-Espino D, Karatzas E; Novel Metagenome Protein Families Consortium; Iliopoulos I, Konstantinidis K, Tiedje JM, Pett-Ridge J, Baker D, Visel A, Ouzounis CA, Ovchinnikov S, Buluç A, Kyrpides NC. Pavlopoulos GA, et al. Nature. 2023 Oct;622(7983):594-602. doi: 10.1038/s41586-023-06583-7. Epub 2023 Oct 11. Nature. 2023. PMID: 37821698 Free PMC article.
Structure-based protein design with deep learning.
Ovchinnikov S, Huang PS. Ovchinnikov S, et al. Curr Opin Chem Biol. 2021 Dec;65:136-144. doi: 10.1016/j.cbpa.2021.08.004. Epub 2021 Sep 20. Curr Opin Chem Biol. 2021. PMID: 34547592 Free PMC article. Review.
Cyclic peptide structure prediction and design using AlphaFold2.
Rettie SA, Campbell KV, Bera AK, Kang A, Kozlov S, Bueso YF, De La Cruz J, Ahlrichs M, Cheng S, Gerben SR, Lamb M, Murray A, Adebomi V, Zhou G, DiMaio F, Ovchinnikov S, Bhardwaj G. Rettie SA, et al. Nat Commun. 2025 May 21;16(1):4730. doi: 10.1038/s41467-025-59940-7. Nat Commun. 2025. PMID: 40399308 Free PMC article.
23 results