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19 results

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Page 1
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: ragotte r. Science. 2022 Jul 22;377(6604):387-394. doi: 10.1126/science.abn2100. Epub 2022 Jul 21. Science. 2022. PMID: 35862514 Free PMC article.
Hallucinating symmetric protein assemblies.
Wicky BIM, Milles LF, Courbet A, Ragotte RJ, Dauparas J, Kinfu E, Tipps S, Kibler RD, Baek M, DiMaio F, Li X, Carter L, Kang A, Nguyen H, Bera AK, Baker D. Wicky BIM, et al. Among authors: ragotte rj. Science. 2022 Oct 7;378(6615):56-61. doi: 10.1126/science.add1964. Epub 2022 Sep 15. Science. 2022. PMID: 36108048 Free PMC article.
Robust deep learning-based protein sequence design using ProteinMPNN.
Dauparas J, Anishchenko I, Bennett N, Bai H, Ragotte RJ, Milles LF, Wicky BIM, Courbet A, de Haas RJ, Bethel N, Leung PJY, Huddy TF, Pellock S, Tischer D, Chan F, Koepnick B, Nguyen H, Kang A, Sankaran B, Bera AK, King NP, Baker D. Dauparas J, et al. Among authors: ragotte rj. Science. 2022 Oct 7;378(6615):49-56. doi: 10.1126/science.add2187. Epub 2022 Sep 15. Science. 2022. PMID: 36108050 Free PMC article.
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: ragotte rj. 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.
Designed miniproteins potently inhibit and protect against MERS-CoV.
Ragotte RJ, Tortorici MA, Catanzaro NJ, Addetia A, Coventry B, Froggatt HM, Lee J, Stewart C, Brown JT, Goreshnik I, Sims JN, Milles LF, Wicky BIM, Glögl M, Gerben S, Kang A, Bera AK, Sharkey W, Schäfer A, Baric RS, Baker D, Veesler D. Ragotte RJ, et al. bioRxiv [Preprint]. 2024 Nov 4:2024.11.03.621760. doi: 10.1101/2024.11.03.621760. bioRxiv. 2024. PMID: 39574666 Free PMC article. Preprint.
Development of an improved blood-stage malaria vaccine targeting the essential RH5-CyRPA-RIPR invasion complex.
Williams BG, King LDW, Pulido D, Quinkert D, Lias AM, Silk SE, Ragotte RJ, Davies H, Barrett JR, McHugh K, Rigby CA, Alanine DGW, Barfod L, Shea MW, Cowley LA, Dabbs RA, Pattinson DJ, Douglas AD, Lyth OR, Illingworth JJ, Jin J, Carnrot C, Kotraiah V, Christen JM, Noe AR, MacGill RS, King CR, Birkett AJ, Soisson LA, Skinner K, Miura K, Long CA, Higgins MK, Draper SJ. Williams BG, et al. Among authors: ragotte rj. Nat Commun. 2024 Jun 7;15(1):4857. doi: 10.1038/s41467-024-48721-3. Nat Commun. 2024. PMID: 38849365 Free PMC article.
De novo designed proteins neutralize lethal snake venom toxins.
Torres SV, Valle MB, Mackessy SP, Menzies SK, Casewell NR, Ahmadi S, Burlet NJ, Muratspahić E, Sappington I, Overath MD, Rivera-de-Torre E, Ledergerber J, Laustsen AH, Boddum K, Bera AK, Kang A, Brackenbrough E, Cardoso IA, Crittenden EP, Edge RJ, Decarreau J, Ragotte RJ, Pillai AS, Abedi M, Han HL, Gerben SR, Murray A, Skotheim R, Stuart L, Stewart L, Fryer TJA, Jenkins TP, Baker D. Torres SV, et al. Among authors: ragotte rj. Res Sq [Preprint]. 2024 May 17:rs.3.rs-4402792. doi: 10.21203/rs.3.rs-4402792/v1. Res Sq. 2024. PMID: 38798548 Free PMC article. Preprint.
Atomically accurate de novo design of single-domain antibodies.
Bennett NR, Watson JL, Ragotte RJ, Borst AJ, See DL, Weidle C, Biswas R, Shrock EL, Leung PJY, Huang B, Goreshnik I, Ault R, Carr KD, Singer B, Criswell C, Vafeados D, Sanchez MG, Kim HM, Torres SV, Chan S, Baker D. Bennett NR, et al. Among authors: ragotte rj. bioRxiv [Preprint]. 2024 Mar 18:2024.03.14.585103. doi: 10.1101/2024.03.14.585103. bioRxiv. 2024. PMID: 38562682 Free PMC article. Preprint.
The PfRCR complex bridges malaria parasite and erythrocyte during invasion.
Farrell B, Alam N, Hart MN, Jamwal A, Ragotte RJ, Walters-Morgan H, Draper SJ, Knuepfer E, Higgins MK. Farrell B, et al. Among authors: ragotte rj. Nature. 2024 Jan;625(7995):578-584. doi: 10.1038/s41586-023-06856-1. Epub 2023 Dec 20. Nature. 2024. PMID: 38123677 Free PMC article.
19 results