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RNA language models predict mutations that improve RNA function.
bioRxiv [Preprint]. 2024 Apr 6:2024.04.05.588317. doi: 10.1101/2024.04.05.588317.
bioRxiv. 2024.
PMID: 38617247
Free PMC article.
Preprint.
Codetta: predicting the genetic code from nucleotide sequence.
Shulgina Y, Eddy SR.
Shulgina Y, et al.
Bioinformatics. 2023 Jan 1;39(1):btac802. doi: 10.1093/bioinformatics/btac802.
Bioinformatics. 2023.
PMID: 36511586
Free PMC article.
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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.
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A computational screen for alternative genetic codes in over 250,000 genomes.
Shulgina Y, Eddy SR.
Shulgina Y, et al.
Elife. 2021 Nov 9;10:e71402. doi: 10.7554/eLife.71402.
Elife. 2021.
PMID: 34751130
Free PMC article.
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Dissecting the sharp response of a canonical developmental enhancer reveals multiple sources of cooperativity.
Park J, Estrada J, Johnson G, Vincent BJ, Ricci-Tam C, Bragdon MD, Shulgina Y, Cha A, Wunderlich Z, Gunawardena J, DePace AH.
Park J, et al. Among authors: shulgina y.
Elife. 2019 Jun 21;8:e41266. doi: 10.7554/eLife.41266.
Elife. 2019.
PMID: 31223115
Free PMC article.
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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.
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