MRI-guided volume reconstruction of mouse brain from histological sections

► A method of mouse brain histology reconstruction with the guidance of magnetic resonance images was presented. ► Magnetic resonance image was exploited to both constrain the overall shape of histology volume and correct intra-slice artifacts. ► Registration error was rigorously analysed by comparing corresponding anatomical landmarks on both magnetic resonance and histology volumes manually selected by experts. ► Four mouse brains were reconstructed using Nissl stained datasets and registration errors were found lower than those associated with potential error in defining the position of any point in a printed histological brain atlas.