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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: patel j. Nat Commun. 2024 Dec 5;15(1):10627. doi: 10.1038/s41467-024-54812-y. Nat Commun. 2024. PMID: 39638800 Free PMC article.
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: patel j. bioRxiv [Preprint]. 2024 Sep 16:2024.04.05.588317. doi: 10.1101/2024.04.05.588317. bioRxiv. 2024. Update in: Nat Commun. 2024 Dec 5;15(1):10627. doi: 10.1038/s41467-024-54812-y PMID: 38617247 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: patel jr. Nucleic Acids Res. 2024 Jan 5;52(D1):D590-D596. doi: 10.1093/nar/gkad890. Nucleic Acids Res. 2024. PMID: 37889041 Free PMC article.
Cell-free protein synthesis from genomically recoded bacteria enables multisite incorporation of noncanonical amino acids.
Martin RW, Des Soye BJ, Kwon YC, Kay J, Davis RG, Thomas PM, Majewska NI, Chen CX, Marcum RD, Weiss MG, Stoddart AE, Amiram M, Ranji Charna AK, Patel JR, Isaacs FJ, Kelleher NL, Hong SH, Jewett MC. Martin RW, et al. Among authors: patel jr. Nat Commun. 2018 Mar 23;9(1):1203. doi: 10.1038/s41467-018-03469-5. Nat Commun. 2018. PMID: 29572528 Free PMC article.
Recoded organisms engineered to depend on synthetic amino acids.
Rovner AJ, Haimovich AD, Katz SR, Li Z, Grome MW, Gassaway BM, Amiram M, Patel JR, Gallagher RR, Rinehart J, Isaacs FJ. Rovner AJ, et al. Among authors: patel jr. Nature. 2015 Feb 5;518(7537):89-93. doi: 10.1038/nature14095. Epub 2015 Jan 21. Nature. 2015. PMID: 25607356 Free PMC article.
A Mechanistic Model for Colibactin-Induced Genotoxicity.
Healy AR, Nikolayevskiy H, Patel JR, Crawford JM, Herzon SB. Healy AR, et al. J Am Chem Soc. 2016 Dec 7;138(48):15563-15570. doi: 10.1021/jacs.6b10354. Epub 2016 Nov 28. J Am Chem Soc. 2016. PMID: 27934011 Free PMC article.
Corrigendum: Recoded organisms engineered to depend on synthetic amino acids.
Rovner AJ, Haimovich AD, Katz SR, Li Z, Grome MW, Gassaway BM, Amiram M, Patel JR, Gallagher RR, Rinehart J, Isaacs FJ. Rovner AJ, et al. Among authors: patel jr. Nature. 2015 Nov 12;527(7577):264. doi: 10.1038/nature15537. Epub 2015 Sep 23. Nature. 2015. PMID: 26416756 No abstract available.
6,403 results