Colocalization Benchmark Source Explained

The Colocalization Benchmark Source
Description:Free source of benchmark images to validate colocalization in fluorescence microscopy studies
Author:Vadim Zinchuk, Yong Wu, Olga Grossenbacher-Zinchuk
Released:2012
Format:Lossless Tagged Image File Format (TIFF)
License:Free
Version:1.1.1

The Colocalization Benchmark Source (CBS) is a free collection of downloadable images to test and validate the degree of colocalization of markers in any fluorescence microscopy studies. Colocalization is a visual phenomenon when two molecules of interest are associated with the same structures in the cells and potentially share common functional characteristics.[1] [2] [3]

CBS provides researchers with reference tools to verify the results of quantitative colocalization measurements.[4] It serves as a specialised bioimage informatics database of computer-simulated images with exactly known (pre-defined) values of colocalization. They were created using image simulation algorithm. These benchmark images can be downloaded as sets as well as separately. By calculating and comparing the values of coefficients on their images versus benchmark images, researchers can validate the results of quantitative colocalization studies. The use of CBS images was described in a number of studies.[5] [6] [7] [8]

Examples

Researchers can submit examples of custom images when the benchmark images were used to validate colocalization on them. Submitted images are then posted on the site of CBS together with description of their properties and the values of coefficients, such as Pearson's correlation coefficient (Rr), overlap coefficient (R), and others. The template for submitting information about custom images can be downloaded from CBS site.

See also

External links

Notes and References

  1. Bolte S & Cordelieres FP (2006). "A guided tour into subcellular colocalization analysis in light microscopy." J Microsc 224:213–232.
  2. Comeau JW et al. (2006). "A guide to accurate fluorescence microscopy colocalization measurements." Biophys J 91:4611– 4622.
  3. Zinchuk V & Grossenbacher-Zinchuk O (2009). "Recent advances in quantitative colocalization analysis: focus on neuroscience." Prog Histochem Cytochem 44:125-172.
  4. Manders E et al. (1993). "Measurement of colocalization of objects in dual-color confocal images." J Microsc Oxford 169:375–382.
  5. Wu Y et al. (2010). "Quantitative determination of spatial protein-protein correlations in fluorescence confocal microscopy." Biophys J 98:493-504.
  6. Zinchuk V et al. (2011). "Quantifying spatial correlations of fluorescent markers using enhanced background reduction with protein proximity index and correlation coefficient estimations." Nat Protoc 6:1554-1567.
  7. Zinchuk V & Grossenbacher-Zinchuk O (2011). "Quantitative colocalization analysis of confocal fluorescence microscopy images." Curr Protoc Cell Biol Unit 4.19.
  8. Zinchuk V et al. (2013). "Bridging the gap between qualitative and quantitative colocalization results in fluorescence microscopy studies." Sci Rep 3:1365 doi:10.1038/srep01365.

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