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Year Number of Results
1988 1
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2002 1
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2007 2
2008 1
2009 3
2010 2
2011 12
2012 5
2013 8
2014 5
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185 results

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Page 1
De novo design of protein structure and function with RFdiffusion.
Watson JL, Juergens D, Bennett NR, Trippe BL, Yim J, Eisenach HE, Ahern W, Borst AJ, Ragotte RJ, Milles LF, Wicky BIM, Hanikel N, Pellock SJ, Courbet A, Sheffler W, Wang J, Venkatesh P, Sappington I, Torres SV, Lauko A, De Bortoli V, Mathieu E, Ovchinnikov S, Barzilay R, Jaakkola TS, DiMaio F, Baek M, Baker D. Watson JL, et al. Among authors: dimaio f. Nature. 2023 Aug;620(7976):1089-1100. doi: 10.1038/s41586-023-06415-8. Epub 2023 Jul 11. Nature. 2023. PMID: 37433327 Free PMC article.
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. Among authors: dimaio f. Science. 2021 Aug 20;373(6557):871-876. doi: 10.1126/science.abj8754. Epub 2021 Jul 15. Science. 2021. PMID: 34282049 Free PMC article.
Generalized biomolecular modeling and design with RoseTTAFold All-Atom.
Krishna R, Wang J, Ahern W, Sturmfels P, Venkatesh P, Kalvet I, Lee GR, Morey-Burrows FS, Anishchenko I, Humphreys IR, McHugh R, Vafeados D, Li X, Sutherland GA, Hitchcock A, Hunter CN, Kang A, Brackenbrough E, Bera AK, Baek M, DiMaio F, Baker D. Krishna R, et al. Among authors: dimaio f. Science. 2024 Apr 19;384(6693):eadl2528. doi: 10.1126/science.adl2528. Epub 2024 Apr 19. Science. 2024. PMID: 38452047 Free article.
Computational design of sequence-specific DNA-binding proteins.
Glasscock CJ, Pecoraro R, McHugh R, Doyle LA, Chen W, Boivin O, Lonnquist B, Na E, Politanska Y, Haddox HK, Cox D, Norn C, Coventry B, Goreshnik I, Vafeados D, Lee GR, Gordan R, Stoddard BL, DiMaio F, Baker D. Glasscock CJ, et al. Among authors: dimaio f. bioRxiv [Preprint]. 2023 Sep 21:2023.09.20.558720. doi: 10.1101/2023.09.20.558720. bioRxiv. 2023. Update in: Nat Struct Mol Biol. 2025 Nov;32(11):2252-2261. doi: 10.1038/s41594-025-01669-4. PMID: 37790440 Free PMC article. Updated. Preprint.
Improving de novo protein binder design with deep learning.
Bennett NR, Coventry B, Goreshnik I, Huang B, Allen A, Vafeados D, Peng YP, Dauparas J, Baek M, Stewart L, DiMaio F, De Munck S, Savvides SN, Baker D. Bennett NR, et al. Among authors: dimaio f. Nat Commun. 2023 May 6;14(1):2625. doi: 10.1038/s41467-023-38328-5. Nat Commun. 2023. PMID: 37149653 Free PMC article.
Architecture and antigenicity of the Nipah virus attachment glycoprotein.
Wang Z, Amaya M, Addetia A, Dang HV, Reggiano G, Yan L, Hickey AC, DiMaio F, Broder CC, Veesler D. Wang Z, et al. Among authors: dimaio f. Science. 2022 Mar 25;375(6587):1373-1378. doi: 10.1126/science.abm5561. Epub 2022 Mar 3. Science. 2022. PMID: 35239409 Free PMC article.
De novo Design of All-atom Biomolecular Interactions with RFdiffusion3.
Butcher J, Krishna R, Mitra R, Brent RI, Li Y, Corley N, Kim PT, Funk J, Mathis S, Salike S, Muraishi A, Eisenach H, Thompson TR, Chen J, Politanska Y, Sehgal E, Coventry B, Zhang O, Qiang B, Didi K, Kazman M, DiMaio F, Baker D. Butcher J, et al. Among authors: dimaio f. bioRxiv [Preprint]. 2025 Nov 19:2025.09.18.676967. doi: 10.1101/2025.09.18.676967. bioRxiv. 2025. PMID: 41000976 Free PMC article. Preprint.
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. Among authors: dimaio f. Science. 2022 Jul 22;377(6604):387-394. doi: 10.1126/science.abn2100. Epub 2022 Jul 21. Science. 2022. PMID: 35862514 Free PMC article.
Computational design of sequence-specific DNA-binding proteins.
Glasscock CJ, Pecoraro RJ, McHugh R, Doyle LA, Chen W, Boivin O, Lonnquist B, Na E, Politanska Y, Haddox HK, Cox D, Norn C, Coventry B, Goreshnik I, Vafeados D, Lee GR, Gordân R, Stoddard BL, DiMaio F, Baker D. Glasscock CJ, et al. Among authors: dimaio f. Nat Struct Mol Biol. 2025 Nov;32(11):2252-2261. doi: 10.1038/s41594-025-01669-4. Epub 2025 Sep 12. Nat Struct Mol Biol. 2025. PMID: 40940539 Free PMC article.
185 results