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超分辨率混战：二维和三维单分子定位显微镜软件评估。

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

机构信息

Biomedical Imaging Group, School of Engineering, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.

Harvard Center for Advanced Imaging, Harvard University, Cambridge, MA, USA.

出版信息

Nat Methods. 2019 May;16(5):387-395. doi: 10.1038/s41592-019-0364-4. Epub 2019 Apr 8.

DOI:10.1038/s41592-019-0364-4

PMID:30962624

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6684258/

Abstract

With the widespread uptake of two-dimensional (2D) and three-dimensional (3D) single-molecule localization microscopy (SMLM), a large set of different data analysis packages have been developed to generate super-resolution images. In a large community effort, we designed a competition to extensively characterize and rank the performance of 2D and 3D SMLM software packages. We generated realistic simulated datasets for popular imaging modalities-2D, astigmatic 3D, biplane 3D and double-helix 3D-and evaluated 36 participant packages against these data. This provides the first broad assessment of 3D SMLM software and provides a holistic view of how the latest 2D and 3D SMLM packages perform in realistic conditions. This resource allows researchers to identify optimal analytical software for their experiments, allows 3D SMLM software developers to benchmark new software against the current state of the art, and provides insight into the current limits of the field.

摘要

随着二维（2D）和三维（3D）单分子定位显微镜（SMLM）的广泛应用，已经开发出了大量不同的数据分析软件包来生成超分辨率图像。在一个大型社区的努力下，我们设计了一项竞赛，以广泛评估和排名 2D 和 3D SMLM 软件包的性能。我们为流行的成像模式（2D、像散 3D、双平面 3D 和双螺旋 3D）生成了逼真的模拟数据集，并针对这些数据评估了 36 个参赛软件包。这是对 3D SMLM 软件的首次广泛评估，并提供了一个整体视图，展示了最新的 2D 和 3D SMLM 软件包在真实条件下的性能。该资源使研究人员能够为其实验确定最佳分析软件，使 3D SMLM 软件开发者能够将新软件与当前的最先进技术进行基准测试，并深入了解该领域的当前限制。