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Page 1
Computational design of sequence-specific DNA-binding proteins.
Glasscock CJ, Pecoraro R, McHugh R, Doyle LA, Chen W, Boivin O, Lonnquist B, Na E, Politanska Y, Haddox HK, Cox D, Norn C, Coventry B, Goreshnik I, Vafeados D, Lee GR, Gordan R, Stoddard BL, DiMaio F, Baker D. Glasscock CJ, et al. Among authors: haddox hk. bioRxiv [Preprint]. 2023 Sep 21:2023.09.20.558720. doi: 10.1101/2023.09.20.558720. bioRxiv. 2023. PMID: 37790440 Free PMC article. Preprint.
De novo design of immunoglobulin-like domains.
Chidyausiku TM, Mendes SR, Klima JC, Nadal M, Eckhard U, Roel-Touris J, Houliston S, Guevara T, Haddox HK, Moyer A, Arrowsmith CH, Gomis-Rüth FX, Baker D, Marcos E. Chidyausiku TM, et al. Among authors: haddox hk. Nat Commun. 2022 Oct 3;13(1):5661. doi: 10.1038/s41467-022-33004-6. Nat Commun. 2022. PMID: 36192397 Free PMC article.
Age-dependent heterogeneity in the antigenic effects of mutations to influenza hemagglutinin.
Welsh FC, Eguia RT, Lee JM, Haddox HK, Galloway J, Van Vinh Chau N, Loes AN, Huddleston J, Yu TC, Quynh Le M, Nhat NTD, Thi Le Thanh N, Greninger AL, Chu HY, Englund JA, Bedford T, Matsen FA 4th, Boni MF, Bloom JD. Welsh FC, et al. Among authors: haddox hk. Cell Host Microbe. 2024 Aug 14;32(8):1397-1411.e11. doi: 10.1016/j.chom.2024.06.015. Epub 2024 Jul 19. Cell Host Microbe. 2024. PMID: 39032493 Free article.
Small-molecule binding and sensing with a designed protein family.
Lee GR, Pellock SJ, Norn C, Tischer D, Dauparas J, Anischenko I, Mercer JAM, Kang A, Bera A, Nguyen H, Goreshnik I, Vafeados D, Roullier N, Han HL, Coventry B, Haddox HK, Liu DR, Yeh AH, Baker D. Lee GR, et al. Among authors: haddox hk. bioRxiv [Preprint]. 2023 Nov 2:2023.11.01.565201. doi: 10.1101/2023.11.01.565201. bioRxiv. 2023. PMID: 37961294 Free PMC article. Preprint.
Age-dependent heterogeneity in the antigenic effects of mutations to influenza hemagglutinin.
Welsh FC, Eguia RT, Lee JM, Haddox HK, Galloway J, Chau NVV, Loes AN, Huddleston J, Yu TC, Le MQ, Nhat NTD, Thanh NTL, Greninger AL, Chu HY, Englund JA, Bedford T, Matsen FA 4th, Boni MF, Bloom JD. Welsh FC, et al. Among authors: haddox hk. bioRxiv [Preprint]. 2023 Dec 12:2023.12.12.571235. doi: 10.1101/2023.12.12.571235. bioRxiv. 2023. Update in: Cell Host Microbe. 2024 Aug 14;32(8):1397-1411.e11. doi: 10.1016/j.chom.2024.06.015 PMID: 38168237 Free PMC article. Updated. Preprint.
De novo design of obligate ABC-type heterotrimeric proteins.
Bermeo S, Favor A, Chang YT, Norris A, Boyken SE, Hsia Y, Haddox HK, Xu C, Brunette TJ, Wysocki VH, Bhabha G, Ekiert DC, Baker D. Bermeo S, et al. Among authors: haddox hk. Nat Struct Mol Biol. 2022 Dec;29(12):1266-1276. doi: 10.1038/s41594-022-00879-4. Epub 2022 Dec 15. Nat Struct Mol Biol. 2022. PMID: 36522429 Free PMC article.
Large-scale design and refinement of stable proteins using sequence-only models.
Singer JM, Novotney S, Strickland D, Haddox HK, Leiby N, Rocklin GJ, Chow CM, Roy A, Bera AK, Motta FC, Cao L, Strauch EM, Chidyausiku TM, Ford A, Ho E, Zaitzeff A, Mackenzie CO, Eramian H, DiMaio F, Grigoryan G, Vaughn M, Stewart LJ, Baker D, Klavins E. Singer JM, et al. Among authors: haddox hk. PLoS One. 2022 Mar 14;17(3):e0265020. doi: 10.1371/journal.pone.0265020. eCollection 2022. PLoS One. 2022. PMID: 35286324 Free PMC article.
Deep mutational scanning reveals functional constraints and antigenic variability of Lassa virus glycoprotein complex.
Carr CR, Crawford KHD, Murphy M, Galloway JG, Haddox HK, Matsen FA 4th, Andersen KG, King NP, Bloom JD. Carr CR, et al. Among authors: haddox hk. bioRxiv [Preprint]. 2024 Feb 6:2024.02.05.579020. doi: 10.1101/2024.02.05.579020. bioRxiv. 2024. Update in: Immunity. 2024 Sep 10;57(9):2061-2076.e11. doi: 10.1016/j.immuni.2024.06.013 PMID: 38370709 Free PMC article. Updated. Preprint.
Perturbing the energy landscape for improved packing during computational protein design.
Maguire JB, Haddox HK, Strickland D, Halabiya SF, Coventry B, Griffin JR, Pulavarti SVSRK, Cummins M, Thieker DF, Klavins E, Szyperski T, DiMaio F, Baker D, Kuhlman B. Maguire JB, et al. Among authors: haddox hk. Proteins. 2021 Apr;89(4):436-449. doi: 10.1002/prot.26030. Epub 2020 Dec 11. Proteins. 2021. PMID: 33249652 Free PMC article.
18 results