Online registration workflows for atlases of rodent brain and accuracy assessment of spatial translation
Ilya Zaslavsky (San Diego Supercomputer Center, UCSD), Asif Memon (University of California, San Diego), Stephan Lamont (University of California, San Diego), David Valentine (San Diego Supercomputer Center, UCSD), Luis Ibanez (Kitware, Inc.), Gang Song (University of Pennsylvania), Brian Avants (University of Pennsylvania), James Gee (University of Pennsylvania), Yang Liu (University of Pennsylvania), Jyl Boline (Informed Minds)
To address this problem, the INCF Program on digital brain atlasing has developed a common reference space for mouse brain (Waxholm Space, or WHS), and a collection of atlas services, which support on-demand coordinate system description, coordinate transformations, and a range of requests based on point-of-interest queries. The atlas services have been deployed at several atlas hubs, initially supporting coordinate translation between WHS, reference plates and volume representations of the Allen Mouse Brain atlas, and the Paxinos-Watson atlas of the mouse brain. In addition, a mechanism has been developed to register additional image collections to the system of atlas hubs within INCF Digital Atlasing Infrastructure (INCF-DAI) and derive additional spatial reference system descriptions and transformations.
This poster focuses on two extensions of the INCF-DAI work: (a) standardization of online spatial registration workflows and (b) addition of coordinate transformation and registration accuracy measures to atlas services. We demonstrate registration workflow steps, show derivation of certainty fields for transformations between known coordinate systems, and present methodology for reporting transformation accuracy derived over the course of spatial registration.
This work was conducted within the Digital Atlasing Infrastructure Task Force of the INCF Program on Digital Brain Atlasing.