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Optimal trade-off control in machine learning-based library design, with application to adeno-associated virus (AAV) for gene therapy.
Zhu D, Brookes DH, Busia A, Carneiro A, Fannjiang C, Popova G, Shin D, Donohue KC, Lin LF, Miller ZM, Williams ER, Chang EF, Nowakowski TJ, Listgarten J, Schaffer DV. Zhu D, et al. Among authors: listgarten j. Sci Adv. 2024 Jan 26;10(4):eadj3786. doi: 10.1126/sciadv.adj3786. Epub 2024 Jan 24. Sci Adv. 2024. PMID: 38266077 Free PMC article.
On the sparsity of fitness functions and implications for learning.
Brookes DH, Aghazadeh A, Listgarten J. Brookes DH, et al. Among authors: listgarten j. Proc Natl Acad Sci U S A. 2022 Jan 4;119(1):e2109649118. doi: 10.1073/pnas.2109649118. Proc Natl Acad Sci U S A. 2022. PMID: 34937698 Free PMC article.
Conformal prediction under feedback covariate shift for biomolecular design.
Fannjiang C, Bates S, Angelopoulos AN, Listgarten J, Jordan MI. Fannjiang C, et al. Among authors: listgarten j. Proc Natl Acad Sci U S A. 2022 Oct 25;119(43):e2204569119. doi: 10.1073/pnas.2204569119. Epub 2022 Oct 18. Proc Natl Acad Sci U S A. 2022. PMID: 36256807 Free PMC article.
Is Novelty Predictable?
Fannjiang C, Listgarten J. Fannjiang C, et al. Among authors: listgarten j. Cold Spring Harb Perspect Biol. 2024 Feb 1;16(2):a041469. doi: 10.1101/cshperspect.a041469. Cold Spring Harb Perspect Biol. 2024. PMID: 38052497 Review.
Generative models for protein structures and sequences.
Hsu C, Fannjiang C, Listgarten J. Hsu C, et al. Among authors: listgarten j. Nat Biotechnol. 2024 Feb;42(2):196-199. doi: 10.1038/s41587-023-02115-w. Nat Biotechnol. 2024. PMID: 38361069 Review. No abstract available.
Orthologous CRISPR-Cas9 enzymes for combinatorial genetic screens.
Najm FJ, Strand C, Donovan KF, Hegde M, Sanson KR, Vaimberg EW, Sullender ME, Hartenian E, Kalani Z, Fusi N, Listgarten J, Younger ST, Bernstein BE, Root DE, Doench JG. Najm FJ, et al. Among authors: listgarten j. Nat Biotechnol. 2018 Feb;36(2):179-189. doi: 10.1038/nbt.4048. Epub 2017 Dec 18. Nat Biotechnol. 2018. PMID: 29251726 Free PMC article.
Identifying gene expression modules that define human cell fates.
Germanguz I, Listgarten J, Cinkornpumin J, Solomon A, Gaeta X, Lowry WE. Germanguz I, et al. Among authors: listgarten j. Stem Cell Res. 2016 May;16(3):712-24. doi: 10.1016/j.scr.2016.04.008. Epub 2016 Apr 13. Stem Cell Res. 2016. PMID: 27108395 Free PMC article.
53 results