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

Lookup NU author(s): Dr Seamus Holden

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This is the authors' accepted manuscript of an article that has been published in its final definitive form by Nature Publishing Group, 2019.

For re-use rights please refer to the publisher's terms and conditions.


Abstract

With the widespread uptake of 2D and 3D single molecule localization microscopy, a large set of different data analysis packages have been developed to generate super-resolution images. To guide researchers on the optimal analytical software for their experiments, in a large community effort we designed a competition to extensively characterise and rank these options. 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 single molecule localization microscopy software, provides a holistic view of how the latest 2D and 3D single molecule localization software perform in realistic conditions, and ultimately provides insight into the current limits of the field.


Publication metadata

Author(s): Sage D, Pham TA, Babcock H, Lukes T, Pengo T, Chao J, Velmuruga 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

Publication type: Article

Publication status: Published

Journal: Nature Methods

Year: 2019

Volume: 16

Pages: 387-395

Online publication date: 08/04/2019

Acceptance date: 26/02/2019

Date deposited: 06/02/2019

ISSN (print): 1548-7091

ISSN (electronic): 1548-7105

Publisher: Nature Publishing Group

URL: https://doi.org/10.1038/s41592-019-0364-4

DOI: 10.1038/s41592-019-0364-4


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Funding

Funder referenceFunder name
1R15GM128166-01
1353638
1534745
206670/Z/17/ZWellcome Trust
692726
BB/M022374/1
BB/P027431/1
BB/R000697/1
CoG-724489
MC-UU-12018/2
MR/K015826/1

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