Advanced imaging techniques provide holistic observations of complicated biological phenomena across multiple scales while posing great challenges to data analysis. We summarize recent advances and trends in bioimage analysis, discuss current challenges toward better applicability, and envisage new possibilities.
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References
Anderson, P. W. Science 177, 393–396 (1972).
Sofroniew, N. J., Flickinger, D., King, J. & Svoboda, K. eLife 5, e14472 (2016).
Fan, J. et al. Nat. Photonics 13, 809–816 (2019).
McConnell, G. et al. eLife 5, e18659 (2016).
Wu, J. et al. Cell 184, 3318–3332.e17 (2021).
Kim, T. H. & Schnitzer, M. J. Cell 185, 9–41 (2022).
Todorov, M. I. et al. Nat. Methods 17, 442–449 (2020).
Helm, M. S. et al. Nat. Neurosci. 24, 1151–1162 (2021).
Ma, X. et al. Nat. Methods 18, 893–902 (2021).
Krizhevsky, A., Sutskever, I. & Hinton, G. E. Commun. ACM 60, 84–90 (2017).
Moen, E. et al. Nat. Methods 16, 1233–1246 (2019).
Belthangady, C. & Royer, L. A. Nat. Methods 16, 1215–1225 (2019).
Li, X. et al. Nat. Methods 18, 1395–1400 (2021).
Midtvedt, B. et al. Nat. Commun. 13, 7492 (2022).
Li, X. et al. Light Sci. Appl. 10, 44 (2021).
Han, K. et al. IEEE Trans. Pattern Anal. Mach. Intell. 45, 87–110 (2023).
Wang, Z., Xie, Y. & Ji, S. Nat. Mach. Intell. 3, 161–171 (2021).
Avsec, Ž. et al. Nat. Methods 18, 1196–1203 (2021).
Wang, Z., Xu, Y., Wang, D., Yang, J. & Bao, Z. Nat. Mach. Intell. 4, 73–83 (2022).
Mnih, V. et al. Nature 518, 529–533 (2015).
Li, Y. et al. Nat. Methods 19, 1427–1437 (2022).
Wu, J. et al. Nature 612, 62–71 (2022).
Zhang, Y. et al. Nat. Commun. 12, 6391 (2021).
Zeiler, M. D. & Fergus, R. In European Conf. Computer Vision (eds Fleet, D., Pajdla, T., Schiele, B. & Tuytelaars, T.) 818–833 (Springer, 2014).
Schindelin, J. et al. Nat. Methods 9, 676–682 (2012).
Gómez-de-Mariscal, E. et al. Nat. Methods 18, 1192–1195 (2021).
Haase, R. et al. Nat. Methods 17, 5–6 (2020).
Rueden, C. T. et al. Nat. Methods 19, 1326–1327 (2022).
Li, Y. et al. Science 378, 1092–1097 (2022).
Lin, X. et al. Science 361, 1004–1008 (2018).
Bogaerts, W. et al. Nature 586, 207–216 (2020).
Acknowledgements
This work was supported by the National Natural Science Foundation of China (62088102, 62222508).
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Li, X., Zhang, Y., Wu, J. et al. Challenges and opportunities in bioimage analysis. Nat Methods 20, 958–961 (2023). https://doi.org/10.1038/s41592-023-01900-4
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DOI: https://doi.org/10.1038/s41592-023-01900-4