DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas
Harry Carey, Michael Pegios, Lewis Martin, Christine Saleeba, A Turner, Nicholas A. Everett, Ingvild E. Bjerke, Maja Puchades, Jan G. Bjaalie, Simon McMullan
Abstract
Registration of data to a common frame of reference is an essential step in the analysis and integration of diverse neuroscientific data. To this end, volumetric brain atlases enable histological datasets to be spatially registered and analyzed, yet accurate registration remains expertise-dependent and slow. In order to address this limitation, we have trained a neural network, DeepSlice, to register mouse brain histological images to the Allen Brain Common Coordinate Framework, retaining registration accuracy while improving speed by >1000 fold.
Topics & Concepts
Computer scienceImage registrationArtificial intelligenceAtlas (anatomy)Brain atlasNeuroimagingComputer visionPattern recognition (psychology)NeuroscienceMedicineAnatomyBiologyImage (mathematics)Cell Image Analysis TechniquesSingle-cell and spatial transcriptomicsMedical Image Segmentation Techniques