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OpenFold: retraining AlphaFold2 yields new insights into its learning mechanisms and capacity for generalization.
Ahdritz G, Bouatta N, Floristean C, Kadyan S, Xia Q, Gerecke W, O'Donnell TJ, Berenberg D, Fisk I, Zanichelli N, Zhang B, Nowaczynski A, Wang B, Stepniewska-Dziubinska MM, Zhang S, Ojewole A, Guney ME, Biderman S, Watkins AM, Ra S, Lorenzo PR, Nivon L, Weitzner B, Ban YA, Chen S, Zhang M, Li C, Song SL, He Y, Sorger PK, Mostaque E, Zhang Z, Bonneau R, AlQuraishi M. Ahdritz G, et al. Among authors: bonneau r. Nat Methods. 2024 May 14. doi: 10.1038/s41592-024-02272-z. Online ahead of print. Nat Methods. 2024. PMID: 38744917
Tissue and cellular spatiotemporal dynamics in colon aging.
Daly AC, Cambuli F, Äijö T, Lötstedt B, Marjanovic N, Kuksenko O, Smith-Erb M, Fernandez S, Domovic D, Van Wittenberghe N, Drokhlyansky E, Griffin GK, Phatnani H, Bonneau R, Regev A, Vickovic S. Daly AC, et al. Among authors: bonneau r. bioRxiv [Preprint]. 2024 Apr 26:2024.04.22.590125. doi: 10.1101/2024.04.22.590125. bioRxiv. 2024. PMID: 38712088 Free PMC article. Preprint.
Correction to "Computational Prediction of Coiled-Coil Protein Gelation Dynamics and Structure".
Britton D, Christians LF, Liu C, Legocki J, Xiao Y, Meleties M, Yang L, Cammer M, Jia S, Zhang Z, Mahmoudinobar F, Kowalski Z, Renfrew PD, Bonneau R, Pochan DJ, Pak AJ, Montclare JK. Britton D, et al. Among authors: bonneau r. Biomacromolecules. 2024 May 13;25(5):3214. doi: 10.1021/acs.biomac.4c00448. Epub 2024 Apr 17. Biomacromolecules. 2024. PMID: 38630987 Free PMC article. No abstract available.
Computational Design of Phosphotriesterase Improves V-Agent Degradation Efficiency.
Kronenberg J, Chu S, Olsen A, Britton D, Halvorsen L, Guo S, Lakshmi A, Chen J, Kulapurathazhe MJ, Baker CA, Wadsworth BC, Van Acker CJ, Lehman JG 3rd, Otto TC, Renfrew PD, Bonneau R, Montclare JK. Kronenberg J, et al. Among authors: bonneau r. ChemistryOpen. 2024 Mar 1:e202300263. doi: 10.1002/open.202300263. Online ahead of print. ChemistryOpen. 2024. PMID: 38426687 Free article.
Analytical challenges in omics research on asthma and allergy: A National Institute of Allergy and Infectious Diseases workshop.
Bunyavanich S, Becker PM, Altman MC, Lasky-Su J, Ober C, Zengler K, Berdyshev E, Bonneau R, Chatila T, Chatterjee N, Chung KF, Cutcliffe C, Davidson W, Dong G, Fang G, Fulkerson P, Himes BE, Liang L, Mathias RA, Ogino S, Petrosino J, Price ND, Schadt E, Schofield J, Seibold MA, Steen H, Wheatley L, Zhang H, Togias A, Hasegawa K. Bunyavanich S, et al. Among authors: bonneau r. J Allergy Clin Immunol. 2024 Apr;153(4):954-968. doi: 10.1016/j.jaci.2024.01.014. Epub 2024 Jan 29. J Allergy Clin Immunol. 2024. PMID: 38295882
Computational Prediction of Coiled-Coil Protein Gelation Dynamics and Structure.
Britton D, Christians LF, Liu C, Legocki J, Xiao Y, Meleties M, Yang L, Cammer M, Jia S, Zhang Z, Mahmoudinobar F, Kowalski Z, Renfrew PD, Bonneau R, Pochan DJ, Pak AJ, Montclare JK. Britton D, et al. Among authors: bonneau r. Biomacromolecules. 2024 Jan 8;25(1):258-271. doi: 10.1021/acs.biomac.3c00968. Epub 2023 Dec 18. Biomacromolecules. 2024. PMID: 38110299 Free PMC article.
323 results