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Neuroscience data integration through use of digital murine brain atlases

Warsaw, Poland

This full-day course will introduce participants to a workflow for spatial integration of morphological features in a three-dimensional (3D) reference atlas. Students will be introduced to the QuickNII tool for spatial registration of serial microscopic images from mouse or rat brains to three-dimensional reference atlases, learn how labelled features can be identified and extracted using the machine-learning tool ilastik, and subsequently enumerated in brain regions of interest with the Nutil software. This course will consist of a combination of lectures and hands-on training sessions. This short course will introduce the students to key concepts and methods underlying the Human Brain Project (HBP) infrastructure for data sharing, and the 3D mouse and rat brain reference atlases used for spatial data integration in HBP. The course will focus on how neuroscience data from different disciplines can be combined and integrated using 3D reference atlases, and how the 3D atlases can be utilized for analytic purposes.


Registration deadline: 15 August 2019