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OME-Zarr: a cloud-optimized bioimaging file format with international community support.
Moore J, Basurto-Lozada D, Besson S, Bogovic J, Bragantini J, Brown EM, Burel JM, Casas Moreno X, de Medeiros G, Diel EE, Gault D, Ghosh SS, Gold I, Halchenko YO, Hartley M, Horsfall D, Keller MS, Kittisopikul M, Kovacs G, Küpcü Yoldaş A, Kyoda K, le Tournoulx de la Villegeorges A, Li T, Liberali P, Lindner D, Linkert M, Lüthi J, Maitin-Shepard J, Manz T, Marconato L, McCormick M, Lange M, Mohamed K, Moore W, Norlin N, Ouyang W, Özdemir B, Palla G, Pape C, Pelkmans L, Pietzsch T, Preibisch S, Prete M, Rzepka N, Samee S, Schaub N, Sidky H, Solak AC, Stirling DR, Striebel J, Tischer C, Toloudis D, Virshup I, Walczysko P, Watson AM, Weisbart E, Wong F, Yamauchi KA, Bayraktar O, Cimini BA, Gehlenborg N, Haniffa M, Hotaling N, Onami S, Royer LA, Saalfeld S, Stegle O, Theis FJ, Swedlow JR. Moore J, et al. Among authors: ouyang w. Histochem Cell Biol. 2023 Sep;160(3):223-251. doi: 10.1007/s00418-023-02209-1. Epub 2023 Jul 10. Histochem Cell Biol. 2023. PMID: 37428210 Free PMC article.
OME-Zarr: a cloud-optimized bioimaging file format with international community support.
Moore J, Basurto-Lozada D, Besson S, Bogovic J, Bragantini J, Brown EM, Burel JM, Moreno XC, de Medeiros G, Diel EE, Gault D, Ghosh SS, Gold I, Halchenko YO, Hartley M, Horsfall D, Keller MS, Kittisopikul M, Kovacs G, Yoldaş AK, Kyoda K, de la Villegeorges ALT, Li T, Liberali P, Lindner D, Linkert M, Lüthi J, Maitin-Shepard J, Manz T, Marconato L, McCormick M, Lange M, Mohamed K, Moore W, Norlin N, Ouyang W, Özdemir B, Palla G, Pape C, Pelkmans L, Pietzsch T, Preibisch S, Prete M, Rzepka N, Samee S, Schaub N, Sidky H, Solak AC, Stirling DR, Striebel J, Tischer C, Toloudis D, Virshup I, Walczysko P, Watson AM, Weisbart E, Wong F, Yamauchi KA, Bayraktar O, Cimini BA, Gehlenborg N, Haniffa M, Hotaling N, Onami S, Royer LA, Saalfeld S, Stegle O, Theis FJ, Swedlow JR. Moore J, et al. Among authors: ouyang w. bioRxiv [Preprint]. 2023 May 7:2023.02.17.528834. doi: 10.1101/2023.02.17.528834. bioRxiv. 2023. PMID: 36865282 Free PMC article. Updated. Preprint.
Pycro-Manager: open-source software for customized and reproducible microscope control.
Pinkard H, Stuurman N, Ivanov IE, Anthony NM, Ouyang W, Li B, Yang B, Tsuchida MA, Chhun B, Zhang G, Mei R, Anderson M, Shepherd DP, Hunt-Isaak I, Dunn RL, Jahr W, Kato S, Royer LA, Thiagarajah JR, Eliceiri KW, Lundberg E, Mehta SB, Waller L. Pinkard H, et al. Among authors: ouyang w. Nat Methods. 2021 Mar;18(3):226-228. doi: 10.1038/s41592-021-01087-6. Nat Methods. 2021. PMID: 33674797 Free PMC article. No abstract available.
Macromolecular condensation organizes nucleolar sub-phases to set up a pH gradient.
King MR, Ruff KM, Lin AZ, Pant A, Farag M, Lalmansingh JM, Wu T, Fossat MJ, Ouyang W, Lew MD, Lundberg E, Vahey MD, Pappu RV. King MR, et al. Among authors: ouyang w. Cell. 2024 Apr 11;187(8):1889-1906.e24. doi: 10.1016/j.cell.2024.02.029. Epub 2024 Mar 18. Cell. 2024. PMID: 38503281 Free article.
Building the next generation of virtual cells to understand cellular biology.
Johnson GT, Agmon E, Akamatsu M, Lundberg E, Lyons B, Ouyang W, Quintero-Carmona OA, Riel-Mehan M, Rafelski S, Horwitz R. Johnson GT, et al. Among authors: ouyang w. Biophys J. 2023 Sep 19;122(18):3560-3569. doi: 10.1016/j.bpj.2023.04.006. Epub 2023 Apr 11. Biophys J. 2023. PMID: 37050874 Free article. Review.
DeepImageJ: A user-friendly environment to run deep learning models in ImageJ.
Gómez-de-Mariscal E, García-López-de-Haro C, Ouyang W, Donati L, Lundberg E, Unser M, Muñoz-Barrutia A, Sage D. Gómez-de-Mariscal E, et al. Among authors: ouyang w. Nat Methods. 2021 Oct;18(10):1192-1195. doi: 10.1038/s41592-021-01262-9. Epub 2021 Sep 30. Nat Methods. 2021. PMID: 34594030
Analysis of the Human Protein Atlas Weakly Supervised Single-Cell Classification competition.
Le T, Winsnes CF, Axelsson U, Xu H, Mohanakrishnan Kaimal J, Mahdessian D, Dai S, Makarov IS, Ostankovich V, Xu Y, Benhamou E, Henkel C, Solovyev RA, Banić N, Bošnjak V, Bošnjak A, Miličević A, Ouyang W, Lundberg E. Le T, et al. Among authors: ouyang w. Nat Methods. 2022 Oct;19(10):1221-1229. doi: 10.1038/s41592-022-01606-z. Epub 2022 Sep 29. Nat Methods. 2022. PMID: 36175767 Free PMC article.
1,390 results