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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. bioRxiv [Preprint]. 2024 Apr 6:2024.04.05.588317. doi: 10.1101/2024.04.05.588317. bioRxiv. 2024. PMID: 38617247 Free PMC article. Preprint.
Idiosyncratic epistasis leads to global fitness-correlated trends.
Bakerlee CW, Nguyen Ba AN, Shulgina Y, Rojas Echenique JI, Desai MM. Bakerlee CW, et al. Among authors: shulgina y. Science. 2022 May 6;376(6593):630-635. doi: 10.1126/science.abm4774. Epub 2022 May 5. Science. 2022. PMID: 35511982 Free PMC article.
Synthetic genome recoding: new genetic codes for new features.
Kuo J, Stirling F, Lau YH, Shulgina Y, Way JC, Silver PA. Kuo J, et al. Among authors: shulgina y. Curr Genet. 2018 Apr;64(2):327-333. doi: 10.1007/s00294-017-0754-z. Epub 2017 Oct 5. Curr Genet. 2018. PMID: 28983660 Free PMC article. Review.