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Fluorescence microscopy datasets for training deep neural networks.

Hagen GM, Bendesky J, Machado R, Nguyen TA, Kumar T, Ventura J. Hagen GM, et al. Gigascience. 2021 May 5;10(5):giab032. doi: 10.1093/gigascience/giab032. Gigascience. 2021. PMID: 33954794 Free PMC article.

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Optical Imaging of Magnetic Particle Cluster Oscillation and Rotation in Glycerol.

Gassen R, Thompkins D, Routt A, Jones P, Smith M, Thompson W, Couture P, Bozhko DA, Celinski Z, Camley RE, Hagen GM, Spendier K. Gassen R, et al. Among authors: hagen gm. J Imaging. 2021 Apr 29;7(5):82. doi: 10.3390/jimaging7050082. J Imaging. 2021. PMID: 34460678 Free PMC article.

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Artifact-free whole-slide imaging with structured illumination microscopy and Bayesian image reconstruction.

Johnson KA, Hagen GM. Johnson KA, et al. Among authors: hagen gm. Gigascience. 2020 Apr 1;9(4):giaa035. doi: 10.1093/gigascience/giaa035. Gigascience. 2020. PMID: 32285910 Free PMC article.

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Replication timing of pseudo-NORs.

Smirnov E, Cmarko D, Kováčik L, Hagen GM, Popov A, Raska O, Prieto JL, Ryabchenko B, Amim F, McStay B, Raska I. Smirnov E, et al. Among authors: hagen gm. J Struct Biol. 2011 Feb;173(2):213-8. doi: 10.1016/j.jsb.2010.11.023. Epub 2010 Dec 3. J Struct Biol. 2011. PMID: 21130882

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Super-resolution fight club: assessment of 2D and 3D single-molecule localization microscopy software.

Sage D, Pham TA, Babcock H, Lukes T, Pengo T, Chao J, Velmurugan R, Herbert A, Agrawal A, Colabrese S, Wheeler A, Archetti A, Rieger B, Ober R, Hagen GM, Sibarita JB, Ries J, Henriques R, Unser M, Holden S. Sage D, et al. Among authors: hagen gm. Nat Methods. 2019 May;16(5):387-395. doi: 10.1038/s41592-019-0364-4. Epub 2019 Apr 8. Nat Methods. 2019. PMID: 30962624 Free PMC article.

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SIMToolbox: a MATLAB toolbox for structured illumination fluorescence microscopy.

Křížek P, Lukeš T, Ovesný M, Fliegel K, Hagen GM. Křížek P, et al. Among authors: hagen gm. Bioinformatics. 2016 Jan 15;32(2):318-20. doi: 10.1093/bioinformatics/btv576. Epub 2015 Oct 6. Bioinformatics. 2016. PMID: 26446133

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Quantitative super-resolution single molecule microscopy dataset of YFP-tagged growth factor receptors.

Lukeš T, Pospíšil J, Fliegel K, Lasser T, Hagen GM. Lukeš T, et al. Among authors: hagen gm. Gigascience. 2018 Mar 1;7(3):1-10. doi: 10.1093/gigascience/giy002. Gigascience. 2018. PMID: 29361123 Free PMC article.

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Imaging Membrane Curvature inside a FcεRI-Centric Synapse in RBL-2H3 Cells Using TIRF Microscopy with Polarized Excitation.

Machado R, Bendesky J, Brown M, Spendier K, Hagen GM. Machado R, et al. Among authors: hagen gm. J Imaging. 2019 Jul;5(7):63. doi: 10.3390/jimaging5070063. Epub 2019 Jul 4. J Imaging. 2019. PMID: 31360699 Free PMC article.

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A benchmark for comparison of cell tracking algorithms.

Maška M, Ulman V, Svoboda D, Matula P, Matula P, Ederra C, Urbiola A, España T, Venkatesan S, Balak DM, Karas P, Bolcková T, Streitová M, Carthel C, Coraluppi S, Harder N, Rohr K, Magnusson KE, Jaldén J, Blau HM, Dzyubachyk O, Křížek P, Hagen GM, Pastor-Escuredo D, Jimenez-Carretero D, Ledesma-Carbayo MJ, Muñoz-Barrutia A, Meijering E, Kozubek M, Ortiz-de-Solorzano C. Maška M, et al. Among authors: hagen gm. Bioinformatics. 2014 Jun 1;30(11):1609-17. doi: 10.1093/bioinformatics/btu080. Epub 2014 Feb 12. Bioinformatics. 2014. PMID: 24526711 Free PMC article.

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Separation of replication and transcription domains in nucleoli.

Smirnov E, Borkovec J, Kováčik L, Svidenská S, Schröfel A, Skalníková M, Švindrych Z, Křížek P, Ovesný M, Hagen GM, Juda P, Michalová K, Cardoso MC, Cmarko D, Raška I. Smirnov E, et al. Among authors: hagen gm. J Struct Biol. 2014 Dec;188(3):259-66. doi: 10.1016/j.jsb.2014.10.001. Epub 2014 Oct 17. J Struct Biol. 2014. PMID: 25450594

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