Evidence map›Paper›PMID 34302049›Full record

ArticleCommunications biology2021

3D test sample for the calibration and quality control of stimulated emission depletion (STED) and confocal microscopes.

Ernest B van der Wee, Jantina Fokkema, Chris L Kennedy, Marc Del Pozo, D A Matthijs de Winter, Peter N A Speets, Hans C Gerritsen, Alfons van Blaaderen

Erratum issuedAbstract readComparative Study
In one paragraph

Article in Communications biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Quantitative 3D Real-Space Analysis of Photonic Supraparticles.Advanced materials (Deerfield Beach, Fla.) · 2026
    Article
  2. STED Super-Resolution Microscopy for Studying Actin Cytoskeleton Organization.Methods in molecular biology (Clifton, N.J.) · 2026
    Article
  3. Article
  4. Article
  5. Article
  6. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Ernest B van der Wee *Soft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.ORCID http://orcid.org/0000-0002-0139-4019
Jantina Fokkema *Soft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.
Chris L KennedySoft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.
Marc Del PozoSoft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.ORCID http://orcid.org/0000-0002-0287-0873
D A Matthijs de WinterSoft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.
Peter N A SpeetsSoft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.ORCID http://orcid.org/0000-0003-3167-2224
Hans C GerritsenSoft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands.
Alfons van BlaaderenSoft Condensed Matter and Molecular Biophysics, Debye Institute for Nanomaterials Science, Utrecht University, Utrecht, the Netherlands. a.vanblaaderen@uu.nl.ORCID http://orcid.org/0000-0003-3090-2753

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Multiple samples are required to monitor and optimize the quality and reliability of quantitative measurements of stimulated emission depletion (STED) and confocal microscopes. Here, we present a single sample to calibrate these microscopes, align their laser beams and measure their point spread function (PSF) in 3D. The sample is composed of a refractive index matched colloidal crystal of silica beads with fluorescent and gold cores. The microscopes can be calibrated in three dimensions using the periodicity of the crystal; the alignment of the laser beams can be checked using the reflection of the gold cores; and the PSF can be measured at multiple positions and depths using the fluorescent cores. It is demonstrated how this sample can be used to visualize and improve the quality of STED and confocal microscopy images. The sample is adjustable to meet the requirements of different NA objectives and microscopy techniques and additionally can be used to evaluate refractive index mismatches as a function of depth quantitatively.

Indexed as

Quality ControlCalibrationMicroscopyMicroscopy, ConfocalReproducibility of Results

Identifiers

PMID34302049
PMCPMC8302645

What OpenQuestion holds

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LicenceCC BY
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Registered trials

None linked

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.