Díaz DJ - Search Results

1

Biosensor and machine learning-aided engineering of an amaryllidaceae enzyme.

d'Oelsnitz S, Diaz DJ, Kim W, Acosta DJ, Dangerfield TL, Schechter MW, Minus MB, Howard JR, Do H, Loy JM, Alper HS, Zhang YJ, Ellington AD. d'Oelsnitz S, et al. Among authors: diaz dj. Nat Commun. 2024 Mar 7;15(1):2084. doi: 10.1038/s41467-024-46356-y. Nat Commun. 2024. PMID: 38453941 Free PMC article.

2

Asymmetric Synthesis of α-Chloroamides via Photoenzymatic Hydroalkylation of Olefins.

Liu Y, Bender SG, Sorigue D, Diaz DJ, Ellington AD, Mann G, Allmendinger S, Hyster TK. Liu Y, et al. Among authors: diaz dj. J Am Chem Soc. 2024 Mar 20;146(11):7191-7197. doi: 10.1021/jacs.4c00927. Epub 2024 Mar 5. J Am Chem Soc. 2024. PMID: 38442365

3

Two sequence- and two structure-based ML models have learned different aspects of protein biochemistry.

Kulikova AV, Diaz DJ, Chen T, Cole TJ, Ellington AD, Wilke CO. Kulikova AV, et al. Among authors: diaz dj. Sci Rep. 2023 Aug 16;13(1):13280. doi: 10.1038/s41598-023-40247-w. Sci Rep. 2023. PMID: 37587128 Free PMC article.

4

Two sequence- and two structure-based ML models have learned different aspects of protein biochemistry.

Kulikova AV, Diaz DJ, Chen T, Jeffrey Cole T, Ellington AD, Wilke CO. Kulikova AV, et al. Among authors: diaz dj. bioRxiv [Preprint]. 2023 Jul 9:2023.03.20.533508. doi: 10.1101/2023.03.20.533508. bioRxiv. 2023. PMID: 36993648 Free PMC article. Updated. Preprint.

5

Using machine learning to predict the effects and consequences of mutations in proteins.

Diaz DJ, Kulikova AV, Ellington AD, Wilke CO. Diaz DJ, et al. Curr Opin Struct Biol. 2023 Feb;78:102518. doi: 10.1016/j.sbi.2022.102518. Epub 2023 Jan 3. Curr Opin Struct Biol. 2023. PMID: 36603229 Free PMC article. Review.

6

GroovDB: A Database of Ligand-Inducible Transcription Factors.

d'Oelsnitz S, Love JD, Diaz DJ, Ellington AD. d'Oelsnitz S, et al. Among authors: diaz dj. ACS Synth Biol. 2022 Oct 21;11(10):3534-3537. doi: 10.1021/acssynbio.2c00382. Epub 2022 Sep 30. ACS Synth Biol. 2022. PMID: 36178800

7

Machine learning-aided engineering of hydrolases for PET depolymerization.

Lu H, Diaz DJ, Czarnecki NJ, Zhu C, Kim W, Shroff R, Acosta DJ, Alexander BR, Cole HO, Zhang Y, Lynd NA, Ellington AD, Alper HS. Lu H, et al. Among authors: diaz dj. Nature. 2022 Apr;604(7907):662-667. doi: 10.1038/s41586-022-04599-z. Epub 2022 Apr 27. Nature. 2022. PMID: 35478237

8

Improved Bst DNA Polymerase Variants Derived via a Machine Learning Approach.

Paik I, Ngo PHT, Shroff R, Diaz DJ, Maranhao AC, Walker DJF, Bhadra S, Ellington AD. Paik I, et al. Among authors: diaz dj. Biochemistry. 2023 Jan 17;62(2):410-418. doi: 10.1021/acs.biochem.1c00451. Epub 2021 Nov 11. Biochemistry. 2023. PMID: 34762799 Free PMC article.

9

Learning the local landscape of protein structures with convolutional neural networks.

Kulikova AV, Diaz DJ, Loy JM, Ellington AD, Wilke CO. Kulikova AV, et al. Among authors: diaz dj. J Biol Phys. 2021 Dec;47(4):435-454. doi: 10.1007/s10867-021-09593-6. Epub 2021 Nov 9. J Biol Phys. 2021. PMID: 34751854 Free PMC article.

10

Discovery of Novel Gain-of-Function Mutations Guided by Structure-Based Deep Learning.

Shroff R, Cole AW, Diaz DJ, Morrow BR, Donnell I, Annapareddy A, Gollihar J, Ellington AD, Thyer R. Shroff R, et al. Among authors: diaz dj. ACS Synth Biol. 2020 Nov 20;9(11):2927-2935. doi: 10.1021/acssynbio.0c00345. Epub 2020 Oct 16. ACS Synth Biol. 2020. PMID: 33064458

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