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SIMBA: single-cell embedding along with features.
Chen H, Ryu J, Vinyard ME, Lerer A, Pinello L. Chen H, et al. Among authors: ryu j. Nat Methods. 2024 Jun;21(6):1003-1013. doi: 10.1038/s41592-023-01899-8. Epub 2023 May 29. Nat Methods. 2024. PMID: 37248389 Free PMC article.
Joint genotypic and phenotypic outcome modeling improves base editing variant effect quantification.
Ryu J, Barkal S, Yu T, Jankowiak M, Zhou Y, Francoeur M, Phan QV, Li Z, Tognon M, Brown L, Love MI, Lettre G, Ascher DB, Cassa CA, Sherwood RI, Pinello L. Ryu J, et al. medRxiv [Preprint]. 2023 Sep 10:2023.09.08.23295253. doi: 10.1101/2023.09.08.23295253. medRxiv. 2023. Update in: Nat Genet. 2024 May;56(5):925-937. doi: 10.1038/s41588-024-01726-6. PMID: 37732177 Free PMC article. Updated. Preprint.