ArticleFrontiers in bioinformatics2021
Raw Data to Results: A Hands-On Introduction and Overview of Computational Analysis for Single-Molecule Localization Microscopy.
Article in Frontiers in bioinformatics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 18 citations in OpenAlex.
- Digital-micromirror-device-based illumination strategies for background suppression in single-molecule localization microscopy.Biomedical optics express · 2026Article
- Reinforced optical cage systems enable drift-free single-molecule localization microscopy.Communications engineering · 2025Article
- Nanoscale architecture and dynamics of CaJournal of molecular and cellular cardiology plus · 2025Article
- Perspective: An outlook on fluorescence tracking.The Journal of chemical physics · 2025Article
- Quality control maps: Real-time quantitative control of single-molecule localization microscopy data.Biophysical journal · 2025Article
- Single Extracellular VEsicle Nanoscopy-Universal Protocol (SEVEN-UP): Accessible Imaging Platform for Quantitative Characterization of Single Extracellular Vesicles.Analytical chemistry · 2025Article
- Optimized molecule detection in localization microscopy with selected false positive probability.Nature communications · 2025Article
- Graph-Based Spatial Proximity of Super-Resolved Protein-Protein Interactions Predicts Cancer Drug Responses in Single Cells.Cellular and molecular bioengineering · 2024Article
- Triggered cagedSTORM microscopy.Biomedical optics express · 2024Article
- Assessing crosstalk in simultaneous multicolor single-molecule localization microscopy.Cell reports methods · 2023Article
- Recent Advances in Single-Molecule Tracking and Imaging Techniques.Annual review of analytical chemistry (Palo Alto, Calif.) · 2023Review
- Tracking the Message: Applying Single Molecule Localization Microscopy to Cellular RNA Imaging.Chembiochem : a European journal of chemical biology · 2023Review
- Quantitative Single-Molecule Localization Microscopy.Annual review of biophysics · 2023Review
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-molecule localization microscopy (SMLM) is an advanced microscopy method that uses the blinking of fluorescent molecules to determine the position of these molecules with a resolution below the diffraction limit (∼5-40 nm). While SMLM imaging itself is becoming more popular, the computational analysis surrounding the technique is still a specialized area and often remains a "black box" for experimental researchers. Here, we provide an introduction to the required computational analysis of SMLM imaging, post-processing and typical data analysis. Importantly, user-friendly, ready-to-use and well-documented code in Python and MATLAB with exemplary data is provided as an interactive experience for the reader, as well as a starting point for further analysis. Our code is supplemented by descriptions of the computational problems and their implementation. We discuss the state of the art in computational methods and software suites used in SMLM imaging and data analysis. Finally, we give an outlook into further computational challenges in the field.
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