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Page 1
RNA language models predict mutations that improve RNA function.
Shulgina Y, Trinidad MI, Langeberg CJ, Nisonoff H, Chithrananda S, Skopintsev P, Nissley AJ, Patel J, Boger RS, Shi H, Yoon PH, Doherty EE, Pande T, Iyer AM, Doudna JA, Cate JHD. Shulgina Y, et al. Among authors: trinidad mi. bioRxiv [Preprint]. 2024 Apr 6:2024.04.05.588317. doi: 10.1101/2024.04.05.588317. bioRxiv. 2024. PMID: 38617247 Free PMC article. Preprint.
Precise transcript targeting by CRISPR-Csm complexes.
Colognori D, Trinidad M, Doudna JA. Colognori D, et al. Nat Biotechnol. 2023 Sep;41(9):1256-1264. doi: 10.1038/s41587-022-01649-9. Epub 2023 Jan 23. Nat Biotechnol. 2023. PMID: 36690762 Free PMC article.
Mitigation of chromosome loss in clinical CRISPR-Cas9-engineered T cells.
Tsuchida CA, Brandes N, Bueno R, Trinidad M, Mazumder T, Yu B, Hwang B, Chang C, Liu J, Sun Y, Hopkins CR, Parker KR, Qi Y, Satpathy AT, Stadtmauer EA, Cate JHD, Eyquem J, Fraietta JA, June CH, Chang HY, Ye CJ, Doudna JA. Tsuchida CA, et al. bioRxiv [Preprint]. 2023 Mar 22:2023.03.22.533709. doi: 10.1101/2023.03.22.533709. bioRxiv. 2023. PMID: 36993359 Free PMC article. Updated. Preprint.
Eukaryotic RNA-guided endonucleases evolved from a unique clade of bacterial enzymes.
Yoon PH, Skopintsev P, Shi H, Chen LX, Adler BA, Al-Shimary M, Craig RJ, Li Z, Amerasekera J, Trinidad M, Nisonoff H, Chen K, Lahiri A, Boger R, Jacobsen S, Banfield JF, Doudna JA. Yoon PH, et al. bioRxiv [Preprint]. 2023 Aug 10:2023.08.09.552727. doi: 10.1101/2023.08.09.552727. bioRxiv. 2023. PMID: 37609353 Free PMC article. Updated. Preprint.
CasPEDIA Database: a functional classification system for class 2 CRISPR-Cas enzymes.
Adler BA, Trinidad MI, Bellieny-Rabelo D, Zhang E, Karp HM, Skopintsev P, Thornton BW, Weissman RF, Yoon PH, Chen L, Hessler T, Eggers AR, Colognori D, Boger R, Doherty EE, Tsuchida CA, Tran RV, Hofman L, Shi H, Wasko KM, Zhou Z, Xia C, Al-Shimary MJ, Patel JR, Thomas VCJX, Pattali R, Kan MJ, Vardapetyan A, Yang A, Lahiri A, Maxwell MF, Murdock AG, Ramit GC, Henderson HR, Calvert RW, Bamert RS, Knott GJ, Lapinaite A, Pausch P, Cofsky JC, Sontheimer EJ, Wiedenheft B, Fineran PC, Brouns SJJ, Sashital DG, Thomas BC, Brown CT, Goltsman DSA, Barrangou R, Siksnys V, Banfield JF, Savage DF, Doudna JA. Adler BA, et al. Among authors: trinidad mi. Nucleic Acids Res. 2024 Jan 5;52(D1):D590-D596. doi: 10.1093/nar/gkad890. Nucleic Acids Res. 2024. PMID: 37889041 Free PMC article.
Eukaryotic RNA-guided endonucleases evolved from a unique clade of bacterial enzymes.
Yoon PH, Skopintsev P, Shi H, Chen L, Adler BA, Al-Shimary M, Craig RJ, Loi KJ, DeTurk EC, Li Z, Amerasekera J, Trinidad M, Nisonoff H, Chen K, Lahiri A, Boger R, Jacobsen S, Banfield JF, Doudna JA. Yoon PH, et al. Nucleic Acids Res. 2023 Dec 11;51(22):12414-12427. doi: 10.1093/nar/gkad1053. Nucleic Acids Res. 2023. PMID: 37971304 Free PMC article.
Rapid DNA unwinding accelerates genome editing by engineered CRISPR-Cas9.
Eggers AR, Chen K, Soczek KM, Tuck OT, Doherty EE, Thornton BW, Xu B, Trinidad MI, Doudna JA. Eggers AR, et al. Among authors: trinidad mi. bioRxiv [Preprint]. 2023 Dec 15:2023.12.14.571777. doi: 10.1101/2023.12.14.571777. bioRxiv. 2023. PMID: 38168238 Free PMC article. Updated. Preprint.
18 results