Article: The Open Anatomy Browser: A Collaborative Web-Based Viewer for Interoperable Anatomy Atlases

The Open Anatomy Browser (OABrowser) is an open source, web-based, zero-installation anatomy atlas viewer based on current web browser technologies and evolving anatomy atlas interoperability standards. OABrowser displays three-dimensional anatomical models, image cross-sections of labeled structures and source radiological imaging, and a text-based hierarchy of structures. The viewer includes novel collaborative tools: users can save bookmarks of atlas views for later access and exchange those bookmarks with other users, and dynamic shared views allow groups of users can participate in a collaborative interactive atlas viewing session. We have published several anatomy atlases (an MRI-derived brain atlas and atlases of other parts of the anatomy) to demonstrate OABrowser's functionality. The atlas source data, processing tools, and the source for OABrowser are freely available through GitHub and are distributed under a liberal open source license.

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References

1.

Kapur T, Pieper S, Whitaker R, Aylward S, Jakab M, Schroeder W . The National Alliance for Medical Image Computing, a roadmap initiative to build a free and open source software infrastructure for translational research in medical image analysis. J Am Med Inform Assoc. 2011; 19(2):176-80. PMC: 3277624. DOI: 10.1136/amiajnl-2011-000493. View

2.

Sunkin S, Ng L, Lau C, Dolbeare T, Gilbert T, Thompson C . Allen Brain Atlas: an integrated spatio-temporal portal for exploring the central nervous system. Nucleic Acids Res. 2012; 41(Database issue):D996-D1008. PMC: 3531093. DOI: 10.1093/nar/gks1042. View

3.

Mitsuhashi N, Fujieda K, Tamura T, Kawamoto S, Takagi T, Okubo K . BodyParts3D: 3D structure database for anatomical concepts. Nucleic Acids Res. 2008; 37(Database issue):D782-5. PMC: 2686534. DOI: 10.1093/nar/gkn613. View

4.

Hawrylycz M, Baldock R, Burger A, Hashikawa T, Johnson G, Martone M . Digital atlasing and standardization in the mouse brain. PLoS Comput Biol. 2011; 7(2):e1001065. PMC: 3033370. DOI: 10.1371/journal.pcbi.1001065. View

5.

Sherif T, Kassis N, Rousseau M, Adalat R, Evans A . BrainBrowser: distributed, web-based neurological data visualization. Front Neuroinform. 2015; 8:89. PMC: 4292582. DOI: 10.3389/fninf.2014.00089. View