Dorsal Raphe (Supratrochlear subnucleus) mask in MNI-space (ICBM 2009b)

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.

本研究提供一套针对中缝背核（Dorsal Raphe, DR）——尤其是其更靠背侧的滑车下上核（supratrochlear nucleus）——的二值掩码。该掩码的构建结合了中缝背核的组织学描述（Baker、Halliday与Törk, 1990; Baker等, 1991）、艾伦人脑图谱（Allen Human Brain Atlas, Ding等, 2016），以及经MNI空间（MNI space）配准的BigBrain数据集（Amunts等, 2013; Xiao等, 2019）。
研究人员以MNI坐标x: 0, y: -30, z: -13为中心，绘制了半径3mm的球形感兴趣区域（region of interest, ROI）。随后裁剪掉靠近大脑导水管周围灰质的边缘体素，最终得到体积约32mm³的近似球形感兴趣区域。该坐标的选取旨在匹配中缝背核的滑车下亚核——此前已有研究在阿尔茨海默病无症状阶段的该亚核中发现了神经原纤维缠结（Grinberg等, 2009）。
本掩码采用ICBM 2009b非线性非对称0.5mm的MNI空间格式，可通过以下链接下载：https://www.bic.mni.mcgill.ca/ServicesAtlases/ICBM152NLin2009。

以下为相关参考文献：
1. Amunts, K.等（2013）《BigBrain：超高分辨率三维人脑模型》，《科学（纽约）》，340(6139)，第1472–1475页。可获取于：https://doi.org/10.1126/science.1235381。
2. Baker, K.G.等（1991）《人类脑桥被盖区5-羟色胺能神经元的细胞构筑》，《突触（纽约）》，7(4)，第301–320页。可获取于：https://doi.org/10.1002/syn.890070407。
3. Baker, K.G.、Halliday, G.M.与Törk, I.（1990）《人类中缝背核的细胞构筑：人类中缝背核》，《比较神经病学杂志》，301(2)，第147–161页。可获取于：https://doi.org/10.1002/cne.903010202。
4. Ding, S.-L.等（2016）《成人全脑综合单细胞分辨率图谱》，《比较神经病学杂志》，524(16)，第3127–3481页。可获取于：https://doi.org/10.1002/cne.24080。
5. Grinberg, L.T.等（2009）《阿尔茨海默病中，中缝背核在跨内嗅皮层区域之前即出现磷酸化tau蛋白神经原纤维病变：一种过早发病？》，《神经病理学与应用神经生物学》，35(4)，第406–416页。可获取于：https://doi.org/10.1111/j.1365-2990.2008.00997.x。
6. Xiao, Y.等（2019）《BigBrain数据集与MNI PD25及ICBM152图谱的精准配准》，《科学数据》，6(1)，第210页。可获取于：https://doi.org/10.1038/s41597-019-0217-0。