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OpenFold: retraining AlphaFold2 yields new insights into its learning mechanisms and capacity for generalization.
Nat Methods. 2024 May 14. doi: 10.1038/s41592-024-02272-z. Online ahead of print.
Nat Methods. 2024.
PMID: 38744917
RNA3DB: A structurally-dissimilar dataset split for training and benchmarking deep learning models for RNA structure prediction.
Szikszai M, Magnus M, Sanghi S, Kadyan S, Bouatta N, Rivas E.
Szikszai M, et al. Among authors: bouatta n.
J Mol Biol. 2024 Mar 27:168552. doi: 10.1016/j.jmb.2024.168552. Online ahead of print.
J Mol Biol. 2024.
PMID: 38552946
Free article.
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RNA3DB: A structurally-dissimilar dataset split for training and benchmarking deep learning models for RNA structure prediction.
Szikszai M, Magnus M, Sanghi S, Kadyan S, Bouatta N, Rivas E.
Szikszai M, et al. Among authors: bouatta n.
bioRxiv [Preprint]. 2024 Mar 11:2024.01.30.578025. doi: 10.1101/2024.01.30.578025.
bioRxiv. 2024.
PMID: 38352531
Free PMC article.
Updated.
Preprint.
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OpenProteinSet: Training data for structural biology at scale.
Ahdritz G, Bouatta N, Kadyan S, Jarosch L, Berenberg D, Fisk I, Watkins AM, Ra S, Bonneau R, AlQuraishi M.
Ahdritz G, et al. Among authors: bouatta n.
ArXiv [Preprint]. 2023 Aug 10:arXiv:2308.05326v1.
ArXiv. 2023.
PMID: 37608940
Free PMC article.
Preprint.
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Structural biology at the scale of proteomes.
Bouatta N, AlQuraishi M.
Bouatta N, et al.
Nat Struct Mol Biol. 2023 Feb;30(2):129-130. doi: 10.1038/s41594-023-00924-w.
Nat Struct Mol Biol. 2023.
PMID: 36797377
Free PMC article.
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Publisher Correction: Single-sequence protein structure prediction using a language model and deep learning.
Chowdhury R, Bouatta N, Biswas S, Floristean C, Kharkar A, Roy K, Rochereau C, Ahdritz G, Zhang J, Church GM, Sorger PK, AlQuraishi M.
Chowdhury R, et al. Among authors: bouatta n.
Nat Biotechnol. 2022 Nov;40(11):1692. doi: 10.1038/s41587-022-01556-z.
Nat Biotechnol. 2022.
PMID: 36253538
No abstract available.
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Single-sequence protein structure prediction using a language model and deep learning.
Chowdhury R, Bouatta N, Biswas S, Floristean C, Kharkar A, Roy K, Rochereau C, Ahdritz G, Zhang J, Church GM, Sorger PK, AlQuraishi M.
Chowdhury R, et al. Among authors: bouatta n.
Nat Biotechnol. 2022 Nov;40(11):1617-1623. doi: 10.1038/s41587-022-01432-w. Epub 2022 Oct 3.
Nat Biotechnol. 2022.
PMID: 36192636
Free PMC article.
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Protein structure prediction by AlphaFold2: are attention and symmetries all you need?
Bouatta N, Sorger P, AlQuraishi M.
Bouatta N, et al.
Acta Crystallogr D Struct Biol. 2021 Aug 1;77(Pt 8):982-991. doi: 10.1107/S2059798321007531. Epub 2021 Jul 29.
Acta Crystallogr D Struct Biol. 2021.
PMID: 34342271
Free PMC article.
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