Measuring localization performance of super-resolution algorithms on very active samples

Wolter S, Endesfelder U, van de Linde S, Heilemann M, Sauer M (2011)
Optics Express 19(8): 7020-7033.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
Abstract / Bemerkung
Super-resolution fluorescence imaging based on single-molecule localization relies critically on the availability of efficient processing algorithms to distinguish, identify, and localize emissions of single fluorophores. In multiple current applications, such as three-dimensional, time-resolved or cluster imaging, high densities of fluorophore emissions are common. Here, we provide an analytic tool to test the performance and quality of localization microscopy algorithms and demonstrate that common algorithms encounter difficulties for samples with high fluorophore density. We demonstrate that, for typical single-molecule localization microscopy methods such as dSTORM and the commonly used rapidSTORM scheme, computational precision limits the acceptable density of concurrently active fluorophores to 0.6 per square micrometer and that the number of successfully localized fluorophores per frame is limited to 0.2 per square micrometer. (C) 2011 Optical Society of America
Erscheinungsjahr
2011
Zeitschriftentitel
Optics Express
Band
19
Ausgabe
8
Seite(n)
7020-7033
ISSN
1094-4087
eISSN
1094-4087
Page URI
https://pub.uni-bielefeld.de/record/2289857

Zitieren

Wolter S, Endesfelder U, van de Linde S, Heilemann M, Sauer M. Measuring localization performance of super-resolution algorithms on very active samples. Optics Express. 2011;19(8):7020-7033.
Wolter, S., Endesfelder, U., van de Linde, S., Heilemann, M., & Sauer, M. (2011). Measuring localization performance of super-resolution algorithms on very active samples. Optics Express, 19(8), 7020-7033. doi:10.1364/OE.19.007020
Wolter, S., Endesfelder, U., van de Linde, S., Heilemann, M., and Sauer, M. (2011). Measuring localization performance of super-resolution algorithms on very active samples. Optics Express 19, 7020-7033.
Wolter, S., et al., 2011. Measuring localization performance of super-resolution algorithms on very active samples. Optics Express, 19(8), p 7020-7033.
S. Wolter, et al., “Measuring localization performance of super-resolution algorithms on very active samples”, Optics Express, vol. 19, 2011, pp. 7020-7033.
Wolter, S., Endesfelder, U., van de Linde, S., Heilemann, M., Sauer, M.: Measuring localization performance of super-resolution algorithms on very active samples. Optics Express. 19, 7020-7033 (2011).
Wolter, Steve, Endesfelder, Ulrike, van de Linde, Sebastian, Heilemann, Mike, and Sauer, Markus. “Measuring localization performance of super-resolution algorithms on very active samples”. Optics Express 19.8 (2011): 7020-7033.

36 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Resolution limit of image analysis algorithms.
Cohen EAK, Abraham AV, Ramakrishnan S, Ober RJ., Nat Commun 10(1), 2019
PMID: 30770826
Superresolution microscopy reveals distinct localisation of full length IRSp53 and its I-BAR domain protein within filopodia.
Sudhaharan T, Hariharan S, Lim JSY, Liu JZ, Koon YL, Wright GD, Chiam KH, Ahmed S., Sci Rep 9(1), 2019
PMID: 30792430
Local dimensionality determines imaging speed in localization microscopy.
Fox-Roberts P, Marsh R, Pfisterer K, Jayo A, Parsons M, Cox S., Nat Commun 8(), 2017
PMID: 28079054
From single molecules to life: microscopy at the nanoscale.
Turkowyd B, Virant D, Endesfelder U., Anal Bioanal Chem 408(25), 2016
PMID: 27613013
Super-Resolution Imaging of Plasma Membrane Proteins with Click Chemistry.
Mateos-Gil P, Letschert S, Doose S, Sauer M., Front Cell Dev Biol 4(), 2016
PMID: 27668214
Bayesian localization microscopy based on intensity distribution of fluorophores.
Xu F, Zhang M, Liu Z, Xu P, Zhang F., Protein Cell 6(3), 2015
PMID: 25672498
Spatio-temporal remodeling of functional membrane microdomains organizes the signaling networks of a bacterium.
Schneider J, Klein T, Mielich-Süss B, Koch G, Franke C, Kuipers OP, Kovács ÁT, Sauer M, Lopez D., PLoS Genet 11(4), 2015
PMID: 25909364
Quantitative evaluation of software packages for single-molecule localization microscopy.
Sage D, Kirshner H, Pengo T, Stuurman N, Min J, Manley S, Unser M., Nat Methods 12(8), 2015
PMID: 26076424
Artifacts in single-molecule localization microscopy.
Burgert A, Letschert S, Doose S, Sauer M., Histochem Cell Biol 144(2), 2015
PMID: 26138928
Helium Ion Microscopy Visualizes Lipid Nanodomains in Mammalian Cells.
Schürmann M, Frese N, Beyer A, Heimann P, Widera D, Mönkemöller V, Huser T, Kaltschmidt B, Kaltschmidt C, Gölzhäuser A., Small 11(43), 2015
PMID: 26436577
How to switch a fluorophore: from undesired blinking to controlled photoswitching.
van de Linde S, Sauer M., Chem Soc Rev 43(4), 2014
PMID: 23942584
A simple method to estimate the average localization precision of a single-molecule localization microscopy experiment.
Endesfelder U, Malkusch S, Fricke F, Heilemann M., Histochem Cell Biol 141(6), 2014
PMID: 24522395
Fluorophore localization algorithms for super-resolution microscopy.
Small A, Stahlheber S., Nat Methods 11(3), 2014
PMID: 24577277
Quantitative super-resolution imaging of Bruchpilot distinguishes active zone states.
Ehmann N, van de Linde S, Alon A, Ljaschenko D, Keung XZ, Holm T, Rings A, DiAntonio A, Hallermann S, Ashery U, Heckmann M, Sauer M, Kittel RJ., Nat Commun 5(), 2014
PMID: 25130366
Quantitative microscopy of functional HIV post-entry complexes reveals association of replication with the viral capsid.
Peng K, Muranyi W, Glass B, Laketa V, Yant SR, Tsai L, Cihlar T, Müller B, Kräusslich HG., Elife 3(), 2014
PMID: 25517934
Investigating cellular structures at the nanoscale with organic fluorophores.
van de Linde S, Aufmkolk S, Franke C, Holm T, Klein T, Löschberger A, Proppert S, Wolter S, Sauer M., Chem Biol 20(1), 2013
PMID: 23352135
Localization-based super-resolution imaging of cellular structures.
Kanchanawong P, Waterman CM., Methods Mol Biol 1046(), 2013
PMID: 23868582
Advances in superresolution optical fluctuation imaging (SOFI).
Dertinger T, Pallaoro A, Braun G, Ly S, Laurence TA, Weiss S., Q Rev Biophys 46(2), 2013
PMID: 23672771
Fluorescence nanoscopy. Methods and applications.
Requejo-Isidro J., J Chem Biol 6(3), 2013
PMID: 24432127
Coordinate-based colocalization analysis of single-molecule localization microscopy data.
Malkusch S, Endesfelder U, Mondry J, Gelléri M, Verveer PJ, Heilemann M., Histochem Cell Biol 137(1), 2012
PMID: 22086768
Multicolor super-resolution fluorescence imaging via multi-parameter fluorophore detection.
Bates M, Dempsey GT, Chen KH, Zhuang X., Chemphyschem 13(1), 2012
PMID: 22213647
Wavelet analysis for single molecule localization microscopy.
Izeddin I, Boulanger J, Racine V, Specht CG, Kechkar A, Nair D, Triller A, Choquet D, Dahan M, Sibarita JB., Opt Express 20(3), 2012
PMID: 22330449
Live-cell super-resolution imaging with synthetic fluorophores.
van de Linde S, Heilemann M, Sauer M., Annu Rev Phys Chem 63(), 2012
PMID: 22404589
Statistical deconvolution for superresolution fluorescence microscopy.
Mukamel EA, Babcock H, Zhuang X., Biophys J 102(10), 2012
PMID: 22677393
Quantitative single-molecule microscopy reveals that CENP-A(Cnp1) deposition occurs during G2 in fission yeast.
Lando D, Endesfelder U, Berger H, Subramanian L, Dunne PD, McColl J, Klenerman D, Carr AM, Sauer M, Allshire RC, Heilemann M, Laue ED., Open Biol 2(7), 2012
PMID: 22870388

27 References

Daten bereitgestellt von Europe PubMed Central.

Far-field optical nanoscopy.
Hell SW., Science 316(5828), 2007
PMID: 17525330
Super-resolution video microscopy of live cells by structured illumination.
Kner P, Chhun BB, Griffis ER, Winoto L, Gustafsson MG., Nat. Methods 6(5), 2009
PMID: 19404253
Ultra-high resolution imaging by fluorescence photoactivation localization microscopy.
Hess ST, Girirajan TP, Mason MD., Biophys. J. 91(11), 2006
PMID: 16980368
Three-dimensional super-resolution imaging by stochastic optical reconstruction microscopy.
Huang B, Wang W, Bates M, Zhuang X., Science 319(5864), 2008
PMID: 18174397
Subdiffraction-resolution fluorescence imaging with conventional fluorescent probes.
Heilemann M, van de Linde S, Schuttpelz M, Kasper R, Seefeldt B, Mukherjee A, Tinnefeld P, Sauer M., Angew. Chem. Int. Ed. Engl. 47(33), 2008
PMID: 18646237

Vogelsang, Proc. Nat. Acad. Sci. U.S.A. 106(), 2009
Live-cell super-resolution imaging with trimethoprim conjugates.
Wombacher R, Heidbreder M, van de Linde S, Sheetz MP, Heilemann M, Cornish VW, Sauer M., Nat. Methods 7(9), 2010
PMID: 20693998
Live-cell photoactivated localization microscopy of nanoscale adhesion dynamics.
Shroff H, Galbraith CG, Galbraith JA, Betzig E., Nat. Methods 5(5), 2008
PMID: 18408726
Live-cell dSTORM with SNAP-tag fusion proteins.
Klein T, Loschberger A, Proppert S, Wolter S, van de Linde S, Sauer M., Nat. Methods 8(1), 2011
PMID: 21191367

Bobroff, Rev. Sci. Instrum. 57(), 1986
Precise nanometer localization analysis for individual fluorescent probes.
Thompson RE, Larson DR, Webb WW., Biophys. J. 82(5), 2002
PMID: 11964263
Optimized localization analysis for single-molecule tracking and super-resolution microscopy.
Mortensen KI, Churchman LS, Spudich JA, Flyvbjerg H., Nat. Methods 7(5), 2010
PMID: 20364147

Shannon, Proc. IEEE 72(), 1984
The effect of photoswitching kinetics and labeling densities on super-resolution fluorescence imaging.
van de Linde S, Wolter S, Heilemann M, Sauer M., J. Biotechnol. 149(4), 2010
PMID: 20176060
Three-dimensional sub-100 nm resolution fluorescence microscopy of thick samples.
Juette MF, Gould TJ, Lessard MD, Mlodzianoski MJ, Nagpure BS, Bennett BT, Hess ST, Bewersdorf J., Nat. Methods 5(6), 2008
PMID: 18469823
Spatially resolved observation of crystal-face-dependent catalysis by single turnover counting.
Roeffaers MB, Sels BF, Uji-I H, De Schryver FC, Jacobs PA, De Vos DE, Hofkens J., Nature 439(7076), 2006
PMID: 16452976
Super-resolution reactivity mapping of nanostructured catalyst particles.
Roeffaers MB, De Cremer G, Libeert J, Ameloot R, Dedecker P, Bons AJ, Buckins M, Martens JA, Sels BF, De Vos DE, Hofkens J., Angew. Chem. Int. Ed. Engl. 48(49), 2009
PMID: 19890928

Bornfleth, Journal of Microscopy 189(), 1998
Real-time computation of subdiffraction-resolution fluorescence images.
Wolter S, Schuttpelz M, Tscherepanow M, VAN DE Linde S, Heilemann M, Sauer M., J Microsc 237(1), 2010
PMID: 20055915

Tang, Proc. Nat. Acad. Sci. U.S.A. 107(), 2010
Ultra-fast, high-precision image analysis for localization-based super resolution microscopy.
Quan T, Li P, Long F, Zeng S, Luo Q, Hedde PN, Nienhaus GU, Huang ZL., Opt Express 18(11), 2010
PMID: 20589048

Matsumoto, ACM Trans. Model. Comput. Simul. 8(), 1998

Ehrich, Math. Comp. 62(), 1994
QuickPALM: 3D real-time photoactivation nanoscopy image processing in ImageJ.
Henriques R, Lelek M, Fornasiero EF, Valtorta F, Zimmer C, Mhlanga MM., Nat. Methods 7(5), 2010
PMID: 20431545
Efficient maximum likelihood estimator fitting of histograms.
Laurence TA, Chromy BA., Nat. Methods 7(5), 2010
PMID: 20431544

Endesfelder, Phys. Chem. Chem. Phys. 11(), 2010

Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®

Quellen

PMID: 21503016
PubMed | Europe PMC

Suchen in

Google Scholar