Virtual nanoscopy: like ‘Google Earth’ for cell biologists
August 8, 2012
Just as users of Google Earth can zoom in from space to a view of their own backyard, researchers can now navigate biological tissues from a whole embryo down to its subcellular structures thanks to recent advances in electron microscopy and image processing.
An upgrade to the JCB DataViewer, browser-based image presentation tool from the the Journal of Cell Biology (JCB), now also makes these data publicly accessible for exploration and discovery, the JCB reports in an open-access editorial.
Electron microscopy has been limited by the fact that it can only capture a tiny portion of the cell in a single image at high resolution, making it difficult for researchers to relate the structures they see to the cell as a whole, let alone to the tissue or organ in which the cell is located.
Viewing samples at lower resolution, on the other hand, can reveal the larger picture of a cell or tissue, but researchers then lose the benefit of seeing fine details.
A team of scientists from Leiden University Medical Center in the Netherlands has addressed this problem by developing new tools for stitching together thousands of electron microscopy images into single, high-resolution images of biological tissues — a “Google Earth” for cell biologists — which can be explored using the newly enhanced JCB DataViewer.
The researchers were able to stitch together more than 26,000 individual images to generate an almost complete electron micrograph of a zebrafish embryo, encompassing 281 gigapixels in total, at a resolution of 16 million pixels per inch.
Using the JCB DataViewer, anyone can navigate the zebrafish image from the level of the whole, 1.5 millimeter-long embryo down to subcellular structures.
The image’s large size and complexity meant that providing access to Faas et al.’s data necessitated a major upgrade to the JCB DataViewer, a browser-based image hosting platform originally launched in 2008 to promote the sharing of original data associated with JCBpublications.
“If you can image it, you should be able to publish it,” says JCB Executive Editor Liz Williams. As a journal, “JCB remains committed to developing cutting-edge tools for the presentation of the data that drive progress in the field of cell biology.”
Check out the awesome JCB DataViewer with sample images here.
- F. G. A. Faas, M. C. Avramut, B. M. van den Berg, A. M. Mommaas, A. J. Koster, R. B. G. Ravelli, Virtual nanoscopy: Generation of ultra-large high resolution electron microscopy maps, The Journal of Cell Biology, 2012, DOI: 10.1083/jcb.201201140 (open access)
- E. H. Williams, P. Carpentier, T. Misteli, The JCB DataViewer scales up, The Journal of Cell Biology, 2012, DOI: 10.1083/jcb.201207117