Here we present a binary mask for Dorsal Raphe, specifically the more dorsal supratrochlear nucleus.
The mask was created by combining histological descriptions of DR (Baker, Halliday and Törk, 1990; Baker et al., 1991) and the Allen Human Brain Atlas (Ding et al., 2016), with the MNI-warped BigBrain (Amunts et al., 2013; Xiao et al., 2019). A spherical ROI (3mm radius) was drawn around MNI coordinates x: 0, y: -30, z: -13. Any edge voxels close to the cerebral aqueduct of periaqueductal grey were trimmed leaving a roughly spherical ROI of volume ~32mm3. This position was chosen to align with the supratrochlear subnucleus of DR where neurofibrillary tangles have been identified in asymptomatic stages of Alzheimer’s disease.(Grinberg et al., 2009). The mask is provided in MNI space (ICBM 2009b Nonlinear Asymmetric 0.5mm) which can be downloaded here: https://www.bic.mni.mcgill.ca/ServicesAtlases/ICBM152NLin2009 .
Amunts, K. et al. (2013) ‘BigBrain: an ultrahigh-resolution 3D human brain model’, Science (New York, N.Y.), 340(6139), pp. 1472–1475. Available at: https://doi.org/10.1126/science.1235381.Baker, K.G. et al. (1991) ‘Cytoarchitecture of serotonin-synthesizing neurons in the pontine tegmentum of the human brain’, Synapse (New York, N.Y.), 7(4), pp. 301–320. Available at: https://doi.org/10.1002/syn.890070407.Baker, K.G., Halliday, G.M. and Törk, I. (1990) ‘Cytoarchitecture of the human dorsal raphe nucleus: HUMAN DORSAL RAPHE’, Journal of Comparative Neurology, 301(2), pp. 147–161. Available at: https://doi.org/10.1002/cne.903010202.Ding, S.-L. et al. (2016) ‘Comprehensive cellular-resolution atlas of the adult human brain’, Journal of Comparative Neurology, 524(16), pp. 3127–3481. Available at: https://doi.org/10.1002/cne.24080.Grinberg, L.T. et al. (2009) ‘The dorsal raphe nucleus shows phospho-tau neurofibrillary changes before the transentorhinal region in Alzheimer’s disease. A precocious onset?’, Neuropathology and Applied Neurobiology, 35(4), pp. 406–416. Available at: https://doi.org/10.1111/j.1365-2990.2008.00997.x.Xiao, Y. et al. (2019) ‘An accurate registration of the BigBrain dataset with the MNI PD25 and ICBM152 atlases’, Scientific Data, 6(1), p. 210. Available at: https://doi.org/10.1038/s41597-019-0217-0.