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Quantitative super-resolution imaging with qPAINT
Open accessAbstract
Counting molecules in complexes is challenging, even with super-resolution microscopy. Here, we use the programmable and specific binding of dye-labeled DNA probes to count integer numbers of targets. This method, called quantitative points accumulation in nanoscale topography (qPAINT), works independently of dye photophysics for robust counting with high precision and accuracy over a wide dynamic range. qPAINT was benchmarked on DNA nanostructures and demonstrated for cellular applications by quantifying proteins in situ and the number of single-molecule FISH probes bound to an mRNA target.
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Cites
Imaging Intracellular Fluorescent Proteins at Nanometer Resolution
Betzig, E., Patterson, G. H., Sougrat, R., Lindwasser, O. W., Olenych, S., Bonifacino, J. S., Davidson, M. W., Lippincott-Schwartz, J., & Hess, H. F. (2006) · Science · doi:10.1126/science.1127344 · Cited by 8,772
Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM)
Rust, M. J., Bates, M., & Zhuang, X. (2006) · Nature Methods · doi:10.1038/nmeth929 · Cited by 8,078
Folding DNA to create nanoscale shapes and patterns
Rothemund, P. W. K. (2006) · Nature · doi:10.1038/nature04586 · Cited by 7,354
COPASI—a COmplex PAthway SImulator
Hoops, S., Sahle, S., Gauges, R., Lee, C., Pahle, J., Simus, N., Singhal, M., Xu, L., Mendes, P., & Kummer, U. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl485 · Cited by 2,618
Imaging individual mRNA molecules using multiple singly labeled probes
Raj, A., van den Bogaard, P., Rifkin, S. A., van Oudenaarden, A., & Tyagi, S. (2008) · Nature Methods · doi:10.1038/nmeth.1253 · Cited by 2,028
Evaluation of fluorophores for optimal performance in localization-based super-resolution imaging
Dempsey, G. T., Vaughan, J. C., Chen, K. H., Bates, M., & Zhuang, X. (2011) · Nature Methods · doi:10.1038/nmeth.1768 · Cited by 1,369
Highly inclined thin illumination enables clear single-molecule imaging in cells
Tokunaga, M., Imamoto, N., & Sakata-Sogawa, K. (2008) · Nature Methods · doi:10.1038/nmeth1171 · Cited by 1,305
Actin, Spectrin, and Associated Proteins Form a Periodic Cytoskeletal Structure in Axons
Xu, K., Zhong, G., & Zhuang, X. (2013) · Science · doi:10.1126/science.1232251 · Cited by 1,246
Wide-field subdiffraction imaging by accumulated binding of diffusing probes
Sharonov, A., & Hochstrasser, R. M. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0609643104 · Cited by 1,151
Multiplexed 3D cellular super-resolution imaging with DNA-PAINT and Exchange-PAINT
Jungmann, R., Avendaño, M. S., Woehrstein, J. B., Dai, M., Shih, W. M., & Yin, P. (2014) · Nature Methods · doi:10.1038/nmeth.2835 · Cited by 1,128
Self-citationMicroscopy and its focal switch
Hell, S. W. (2009) · Nature Methods · doi:10.1038/nmeth.1291 · Cited by 986
Jungmann, R., Steinhauer, C., Scheible, M., Kuzyk, A., Tinnefeld, P., & Simmel, F. C. (2010) · Nano Letters · doi:10.1021/nl103427w · Cited by 903
Self-citationSubunit counting in membrane-bound proteins
Ulbrich, M. H., & Isacoff, E. Y. (2007) · Nature Methods · doi:10.1038/nmeth1024 · Cited by 690
The nuclear pore complex: bridging nuclear transport and gene regulation
Strambio-De-Castillia, C., Niepel, M., & Rout, M. P. (2010) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2928 · Cited by 591
A simple, versatile method for GFP-based super-resolution microscopy via nanobodies
Ries, J., Kaplan, C., Platonova, E., Eghlidi, H., & Ewers, H. (2012) · Nature Methods · doi:10.1038/nmeth.1991 · Cited by 571
The Structure of the Nuclear Pore Complex
Hoelz, A., Debler, E. W., & Blobel, G. (2011) · Annual Review of Biochemistry · doi:10.1146/annurev-biochem-060109-151030 · Cited by 523
Nuclear Pore Scaffold Structure Analyzed by Super-Resolution Microscopy and Particle Averaging
Szymborska, A., de Marco, A., Daigle, N., Cordes, V. C., Briggs, J. A. G., & Ellenberg, J. (2013) · Science · doi:10.1126/science.1240672 · Cited by 445
Maturation of active zone assembly by Drosophila Bruchpilot
Fouquet, W., Owald, D., Wichmann, C., Mertel, S., Depner, H., Dyba, M., Hallermann, S., Kittel, R. J., Eimer, S., & Sigrist, S. J. (2009) · Journal of Cell Biology · doi:10.1083/jcb.200812150 · Cited by 406
Lee, S.-H., Shin, J. Y., Lee, A., & Bustamante, C. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1215175109 · Cited by 379
Polyhedra Self-Assembled from DNA Tripods and Characterized with 3D DNA-PAINT
Iinuma, R., Ke, Y., Jungmann, R., Schlichthaerle, T., Woehrstein, J. B., & Yin, P. (2014) · Science · doi:10.1126/science.1250944 · Cited by 359
Self-citationSubmicrometre geometrically encoded fluorescent barcodes self-assembled from DNA
Lin, C., Jungmann, R., Leifer, A. M., Li, C., Levner, D., Church, G. M., Shih, W. M., & Yin, P. (2012) · Nature Chemistry · doi:10.1038/nchem.1451 · Cited by 302
Self-citationDurisic, N., Laparra-Cuervo, L., Sandoval-Álvarez, Á., Borbely, J. S., & Lakadamyali, M. (2014) · Nature Methods · doi:10.1038/nmeth.2784 · Cited by 244
Quantitative super-resolution imaging of Bruchpilot distinguishes active zone states
Ehmann, N., van de Linde, S., Alon, A., Ljaschenko, D., Keung, X. Z., Holm, T., Rings, A., DiAntonio, A., Hallermann, S., Ashery, U., et al. (2014) · Nature Communications · doi:10.1038/ncomms5650 · Cited by 232
Aptamers as potential tools for super-resolution microscopy
Opazo, F., Levy, M., Byrom, M., Schäfer, C., Geisler, C., Groemer, T. W., Ellington, A. D., & Rizzoli, S. O. (2012) · Nature Methods · doi:10.1038/nmeth.2179 · Cited by 182
Puchner, E. M., Walter, J. M., Kasper, R., Huang, B., & Lim, W. A. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1309676110 · Cited by 177
Multiscale Spatial Organization of RNA Polymerase in Escherichia coli
Endesfelder, U., Finan, K., Holden, S. J., Cook, P. R., Kapanidis, A. N., & Heilemann, M. (2013) · Biophysical Journal · doi:10.1016/j.bpj.2013.05.048 · Cited by 177
Zhao, Z., Roy, R., Gebhardt, J. C. M., Suter, D. M., Chapman, A. R., & Xie, X. S. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1318496111 · Cited by 147
Multitarget super-resolution microscopy with high-density labeling by exchangeable probes
Kiuchi, T., Higuchi, M., Takamura, A., Maruoka, M., & Watanabe, N. (2015) · Nature Methods · doi:10.1038/nmeth.3466 · Cited by 136
Counting protein molecules using quantitative fluorescence microscopy
Coffman, V. C., & Wu, J. (2012) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2012.08.002 · Cited by 132
Click Strategies for Single-Molecule Protein Fluorescence
Milles, S., Tyagi, S., Banterle, N., Koehler, C., VanDelinder, V., Plass, T., Neal, A. P., & Lemke, E. A. (2012) · Journal of the American Chemical Society · doi:10.1021/ja210587q · Cited by 120
Endesfelder, U., Malkusch, S., Flottmann, B., Mondry, J., Liguzinski, P., Verveer, P. J., & Heilemann, M. (2011) · Molecules · doi:10.3390/molecules16043106 · Cited by 113
Turbo FISH: A Method for Rapid Single Molecule RNA FISH
Shaffer, S. M., Wu, M.-T., Levesque, M. J., & Raj, A. (2013) · PLoS ONE · doi:10.1371/journal.pone.0075120 · Cited by 111
Renz, M., Daniels, B. R., Vámosi, G., Arias, I. M., & Lippincott‐Schwartz, J. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1211753109 · Cited by 68
Quantitative Localization Microscopy: Effects of Photophysics and Labeling Stoichiometry
Nieuwenhuizen, R. P. J., Bates, M., Szymborska, A., Lidke, K. A., Rieger, B., & Stallinga, S. (2015) · PLoS ONE · doi:10.1371/journal.pone.0127989 · Cited by 53
DNA nanotechnology and fluorescence applications
Schlichthaerle, T., Strauss, M. T., Schueder, F., Woehrstein, J. B., & Jungmann, R. (2016) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2015.12.014 · Cited by 53
Self-citationTa, H., Kiel, A., Wahl, M., & Herten, D. (2010) · Physical Chemistry Chemical Physics · doi:10.1039/c0cp00363h · Cited by 43
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Super-resolution microscopy with DNA-PAINT
Schnitzbauer, J., Strauss, M. T., Schlichthaerle, T., Schueder, F., & Jungmann, R. (2017) · Nature Protocols · doi:10.1038/nprot.2017.024 · Cited by 1,047
Self-citationFluorescence nanoscopy in cell biology
Sahl, S. J., Hell, S. W., & Jakobs, S. (2017) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2017.71 · Cited by 990
Switchable Fluorophores for Single-Molecule Localization Microscopy
Li, H., & Vaughan, J. C. (2018) · Chemical Reviews · doi:10.1021/acs.chemrev.7b00767 · Cited by 319
Seeing beyond the limit: A guide to choosing the right super-resolution microscopy technique
Valli, J., Garcia-Burgos, A., Rooney, L. M., Vale de Melo e Oliveira, B., Duncan, R. R., & Rickman, C. (2021) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2021.100791 · Cited by 159
Chen, C., Zong, S., Liu, Y., Wang, Z., Zhang, Y., Chen, B., & Cui, Y. (2019) · Small · doi:10.1002/smll.201901014 · Cited by 107
Metadata
- Authors
- Jungmann, R., Avendaño, M. S., Dai, M., Woehrstein, J. B., Agasti, S. S., Feiger, Z., Rodal, A., & Yin, P.
- Venue
- Nature Methods
- Published
- 2016-03-28
- Volume
- 13
- Issue
- 5
- Pages
- 439-442
- ISSN
- 1548-7091 (ISSN-L)
- 1548-7105
- OpenAlex
- W2307507937
- Cited by
- 420
- References
- 36
- FWCI
- 25.78
- Type
- journal article
- Language
- en
- Open access
- green
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