The Mouse Brain (Waxholm-40um) atlas represents the canonical Waxholm Space (WHS) adult C57BL/6J mouse brain. It is based on histology and high spatial resolution MR of adult male C57BL/6J mice aged 66-78 days . The atlas resources are available at https://www.nitrc.org/projects/incfwhsmouse.
An adapted version of this atlas is distributed with PMOD as a convenience to our users. Because the original 21.5um isotropic resolution is beyond typical in vivo MR and far beyond the resolution applicable for PET image analysis, it was down-sampled to 40um. It provides a higher resolution space than the Mouse (Ma-Benveniste-Mirrione) atlas. PET templates corresponding to the mouse Waxholm space have been reported in the literature .
The Mouse Brain (Waxholm-40um) atlas contains 26 structures (+ inner ear) organized in accordance with the NeuroLex Brain Partonomy scheme. An ex-vivo masked T2-weighted MR template image is provided for normalization.
Atlas Label Map and Normalization Template
3D Rendering of Brain Regions
 G. Allan Johnson, Alexandra Badea, Jeffrey Brandenburg, Gary Cofer, Boma Fubara, Song Liu, Jonathan Nissanov. Neuroimage 53 (2) 365-372, 2010. PMCID: PMC2930145.
 Bertoglio D, Verhaeghe J, Miranda A, Kertesz I, Cybulska K, Korat Š, Wyffels L, Stroobants S, Mrzljak L, Dominguez C, Liu L, Skinbjerg M, Munoz-Sanjuan I, Staelens S. Validation and noninvasive kinetic modeling of [11C]UCB-J PET imaging in mice. J Cereb Blood Flow Metab. 2020 40(6):1351-1362. doi: 10.1177/0271678X19864081.