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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: royer la. 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.
Content-aware image restoration: pushing the limits of fluorescence microscopy.
Weigert M, Schmidt U, Boothe T, Müller A, Dibrov A, Jain A, Wilhelm B, Schmidt D, Broaddus C, Culley S, Rocha-Martins M, Segovia-Miranda F, Norden C, Henriques R, Zerial M, Solimena M, Rink J, Tomancak P, Royer L, Jug F, Myers EW. Weigert M, et al. Nat Methods. 2018 Dec;15(12):1090-1097. doi: 10.1038/s41592-018-0216-7. Epub 2018 Nov 26. Nat Methods. 2018. PMID: 30478326
GoGene: gene annotation in the fast lane.
Plake C, Royer L, Winnenburg R, Hakenberg J, Schroeder M. Plake C, et al. Nucleic Acids Res. 2009 Jul;37(Web Server issue):W300-4. doi: 10.1093/nar/gkp429. Epub 2009 May 22. Nucleic Acids Res. 2009. PMID: 19465383 Free PMC article.
DaXi-high-resolution, large imaging volume and multi-view single-objective light-sheet microscopy.
Yang B, Lange M, Millett-Sikking A, Zhao X, Bragantini J, VijayKumar S, Kamb M, Gómez-Sjöberg R, Solak AC, Wang W, Kobayashi H, McCarroll MN, Whitehead LW, Fiolka RP, Kornberg TB, York AG, Royer LA. Yang B, et al. Among authors: royer la. Nat Methods. 2022 Apr;19(4):461-469. doi: 10.1038/s41592-022-01417-2. Epub 2022 Mar 21. Nat Methods. 2022. PMID: 35314838 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: royer la. 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.
Democratising deep learning for microscopy with ZeroCostDL4Mic.
von Chamier L, Laine RF, Jukkala J, Spahn C, Krentzel D, Nehme E, Lerche M, Hernández-Pérez S, Mattila PK, Karinou E, Holden S, Solak AC, Krull A, Buchholz TO, Jones ML, Royer LA, Leterrier C, Shechtman Y, Jug F, Heilemann M, Jacquemet G, Henriques R. von Chamier L, et al. Among authors: royer la. Nat Commun. 2021 Apr 15;12(1):2276. doi: 10.1038/s41467-021-22518-0. Nat Commun. 2021. PMID: 33859193 Free PMC article.
Single-cell transcriptional dynamics in a living vertebrate.
Eck E, Moretti B, Schlomann BH, Bragantini J, Lange M, Zhao X, VijayKumar S, Valentin G, Loureiro C, Soroldoni D, Royer LA, Oates AC, Garcia HG. Eck E, et al. Among authors: royer la. bioRxiv [Preprint]. 2024 Jan 4:2024.01.03.574108. doi: 10.1101/2024.01.03.574108. bioRxiv. 2024. PMID: 38260569 Free PMC article. Preprint.
28 results