Bibliographic Data

  • Authors: Tameling C., Stoldt S., Stephan T., Naas J., Jakobs S. & Munk A.
  • Title: Colocalization for super-resolution microscopy via optimal transport
  • Journal: Nature Computational Science
  • Volume: 1
  • Volume: 199–211
  • DOI: 10.1038/s43588-021-00050-x
  • Article in News & Views


Super-resolution fluorescence microscopy is a widely used technique in cell biology. Stimulated emission depletion (STED) microscopy enables the recording of multiple-color images with subdiffraction resolution. The enhanced resolution leads to new challenges regarding colocalization analysis of macromolecule distributions. We demonstrate that well-established methods for the analysis of colocalization in diffraction-limited datasets and for coordinate-stochastic nanoscopy are not equally well suited for the analysis of high-resolution STED images. We propose optimal transport colocalization, which measures the minimal transporting cost below a given spatial scale to match two protein intensity distributions. Its validity on simulated data as well as on dual-color STED recordings of yeast and mammalian cells is demonstrated. We also extend the optimal transport colocalization methodology to coordinate-stochastic nanoscopy.