Colocalization Benchmark Source
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| Content | |
|---|---|
| Description | A free source of benchmark images to validate colocalization in fluorescence microscopy studies |
| Contact | |
| Authors | Vadym Zinchuk, Yong Wu, Olga Grossenbacher-Zinchuk |
| Release date | 2012 |
| Access | |
| Data format | Lossless Tagged Image File Format (TIFF) |
| Website | colocalization-benchmark |
| Miscellaneous | |
| License | Free |
| Version | 2.0 |
The Colocalization Benchmark Source (CBS) is a free collection of downloadable images for testing and validating the degree of colocalization of markers in any fluorescence microscopy study. Colocalization is a visual phenomenon in which two molecules of interest are associated with the same structures in the cells and may 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 precisely known (pre-defined) values of colocalization. These images were created using an image simulation algorithm. These benchmark images can be downloaded either as complete sets or individually. By calculating and comparing the values of coefficients in their own images with those in the benchmark images, researchers can validate the results of quantitative colocalization studies. The use of CBS images has been described in a number of studies.[5][6][7][8]
Examples
Researchers can submit examples of custom images in which the benchmark images were used to validate colocalization. Submitted images are posted on the website of CBS along with descriptions of their properties and the values of coefficients, such as Pearson's correlation coefficient (Rr), overlap coefficient (R), and others. A template for submitting information about custom images can be downloaded from the CBS site.
See also
References
- ^ Bolte S & Cordelieres FP (2006). "A guided tour into subcellular colocalization analysis in light microscopy." J Microsc 224:213–232.
- ^ Comeau JW et al. (2006). "A guide to accurate fluorescence microscopy colocalization measurements." Biophys J 91:4611– 4622.
- ^ Zinchuk V & Grossenbacher-Zinchuk O (2009). "Recent advances in quantitative colocalization analysis: focus on neuroscience." Prog Histochem Cytochem 44:125-172.
- ^ Manders E et al. (1993). "Measurement of colocalization of objects in dual-color confocal images." J Microsc Oxford 169:375–382.
- ^ Wu Y et al. (2010). "Quantitative determination of spatial protein-protein correlations in fluorescence confocal microscopy." Biophys J 98:493-504.
- ^ 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.
- ^ Zinchuk V & Grossenbacher-Zinchuk O (2011). "Quantitative colocalization analysis of confocal fluorescence microscopy images." Curr Protoc Cell Biol Unit 4.19. Archived 2009-11-28 at the Wayback Machine
- ^ 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.