Evidence map›Paper›PMID 24487583›Full record

ArticleNature methods2014

Multiplexed 3D cellular super-resolution imaging with DNA-PAINT and Exchange-PAINT.

Ralf Jungmann, Maier S Avendaño, Johannes B Woehrstein, Mingjie Dai, William M Shih, Peng Yin

Abstract read
In one paragraph

Article in Nature methods, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 556 papers.

0numbers the graph read from it
0cells of the map it votes in
556citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

556 citing papers in PubMed.

  1. Nanorulers for Super-Resolution Microscopy.Chembiochem : a European journal of chemical biology · 2026
    Review
  2. Emerging technologies in the spatial proteomics landscape.Analytical and bioanalytical chemistry · 2026
    Review
  3. Article
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  5. Deep Learning for Localization Microscopy in 2D and 3D.Accounts of chemical research · 2026
    Article
  6. Review
  7. Review
  8. Review
  9. ILK binding to β1 integrin is indirect and mediated by kindlin-2.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
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  11. Review
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  15. Review
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496 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Ralf Jungmann1] Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA. [2] Department of Systems Biology, Harvard Medical School, Boston, Massachusetts, USA. [3].
Maier S Avendaño1] Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA. [2] Department of Systems Biology, Harvard Medical School, Boston, Massachusetts, USA. [3].
Johannes B Woehrstein1] Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA. [2].
Mingjie Dai1] Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA. [2] Program in Biophysics, Harvard University, Cambridge, Massachusetts, USA.
William M Shih1] Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA. [2] Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts, USA. [3] Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.
Peng Yin1] Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA. [2] Department of Systems Biology, Harvard Medical School, Boston, Massachusetts, USA.

Funding

Super-resolution imaging via programmable autonomous blinkingR01EB018659 · NIBIB · HARVARD MEDICAL SCHOOL · PI YIN, PENG · 2013 to 2017
$3.3M
NMR Structure Determination of Membrane Proteins Enabled by DNA NanotubesDP2OD004641 · OD · DANA-FARBER CANCER INST · PI SHIH, WILLIAM M · 2008 to 2008
$2.6M
Engineering Bioimaging Probes Based on Triggered Molecular GeometryDP2OD007292 · OD · HARVARD MEDICAL SCHOOL · PI YIN, PENG · 2010 to 2010
$2.5M
Programmable metafluorophores for quantitative multiplex in situ imaging of mRNAR21HD072481 · NICHD · HARVARD MEDICAL SCHOOL · PI YIN, PENG · 2012 to 2013
$452k
Howard Hughes Medical InstituteNIBIB NIH HHS 1R01EB018659NIBIB NIH HHS R01 EB018659NICHD NIH HHS 5R21HD072481NICHD NIH HHS R21 HD072481NIH HHS 1DP2OD004641NIH HHS 1DP2OD007292NIH HHS DP2 OD004641NIH HHS DP2 OD007292
6 · The paper itself

Abstract

Super-resolution fluorescence microscopy is a powerful tool for biological research, but obtaining multiplexed images for a large number of distinct target species remains challenging. Here we use the transient binding of short fluorescently labeled oligonucleotides (DNA-PAINT, a variation of point accumulation for imaging in nanoscale topography) for simple and easy-to-implement multiplexed super-resolution imaging that achieves sub-10-nm spatial resolution in vitro on synthetic DNA structures. We also report a multiplexing approach (Exchange-PAINT) that allows sequential imaging of multiple targets using only a single dye and a single laser source. We experimentally demonstrate ten-color super-resolution imaging in vitro on synthetic DNA structures as well as four-color two-dimensional (2D) imaging and three-color 3D imaging of proteins in fixed cells.

Indexed as

Imaging, Three-DimensionalColorCytological TechniquesDNAMicroscopy, FluorescenceDNA

Identifiers

PMID24487583
PMCPMC4153392

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.