Comparison of diffusion MRI and CLARITY fiber orientation estimates in both gray and white matter regions of human and primate brain.
Comparison of diffusion MRI and CLARITY fiber orientation estimates in both gray and white matter regions of human and primate brain.
复制标题
在人类和灵长类动物大脑的灰质和白色物质区域中，扩散MRI和磁共振纤维取向估计的比较。
DOI：
10.1016/j.neuroimage.2020.117692
复制
发表时间：
2021-03
期刊：
影响因子：
5.7
通讯作者：
McNab JA
中科院分区：
文献类型：
--
作者：
Leuze C;Goubran M;Barakovic M;Aswendt M;Tian Q;Hsueh B;Crow A;Weber EMM;Steinberg GK;Zeineh M;Plowey ED;Daducci A;Innocenti G;Thiran JP;Deisseroth K;McNab JA
扩散 MRI (dMRI) 是少数几种非侵入性绘制脑纤维方向的方法之一。不幸的是，dMRI 纤维映射是一种间接方法，依赖于测量的扩散模式的推断。将 dMRI 结果与其他模式进行比较是改进 dMRI 数据解释并帮助推进 dMRI 技术的一种方法。在这里，我们提出了将 dMRI 纤维方向估计与使用 CLARITY 清除的 3D 人类和灵长类脑组织长方体中荧光标记的神经丝和脉管系统的光学成像进行比较的方法。组织透明化的最新进展为组织学绘制 3D 投影纤维图提供了新的机会，这代表了 dMRI 测量的迷人补充。在这项工作中，我们展示了直接比较同一人脑组织中的 dMRI 和 CLARITY 的能力，并评估从 CLARITY 数据中提取纤维取向估计的多种方法。我们通过计算结构张量的三级特征向量，从神经丝和脉管系统染色的 CLARITY 图像中估计三维神经元纤维和脉管系统方向。然后，我们通过对多个子体素结构张量方向估计求和，将 CLARITY 方向估计扩展到方向分布函数 (ODF) 形式。在包含部分人类丘脑的样本中，dMRI 张量的初级特征向量与 CLARITY 神经丝染色的三级特征向量之间存在 19° ± 15° 的平均角度差异。我们还通过显示 dMRI 张量的方向和脉管系统染色 CLARITY 图像中的结构张量之间明显缺乏对应关系（平均角度差 = 49° ± 23°）来证明血管室不会影响 dMRI 方向估计。在猕猴大脑数据集中，我们研究了 CLARITY 特征提取如何取决于所选特征提取参数。通过改变导出结构张量估计的组织体积，我们表明，对于低于 30 μm3 的子体素，方向估计的噪声更大，具有更多的虚假 ODF 峰值，并且对于我们的数据，最佳灰质子体素大小在 62.5 μm 3 和 125 μm 3 之间。此处介绍的示例实验代表了稳健的多模态 MRI-CLARITY 比较的重要进步。
Diffusion MRI (dMRI) represents one of the few methods for mapping brain fiber orientations non-invasively. Unfortunately, dMRI fiber mapping is an indirect method that relies on inference from measured diffusion patterns. Comparing dMRI results with other modalities is a way to improve the interpretation of dMRI data and help advance dMRI technologies. Here, we present methods for comparing dMRI fiber orientation estimates with optical imaging of fluorescently labeled neurofilaments and vasculature in 3D human and primate brain tissue cuboids cleared using CLARITY. The recent advancements in tissue clearing provide a new opportunity to histologically map fibers projecting in 3D, which represents a captivating complement to dMRI measurements. In this work, we demonstrate the capability to directly compare dMRI and CLARITY in the same human brain tissue and assess multiple approaches for extracting fiber orientation estimates from CLARITY data. We estimate the three-dimensional neuronal fiber and vasculature orientations from neurofilament and vasculature stained CLARITY images by calculating the tertiary eigenvector of structure tensors. We then extend CLARITY orientation estimates to an orientation distribution function (ODF) formalism by summing multiple sub-voxel structure tensor orientation estimates. In a sample containing part of the human thalamus, there is a mean angular difference of 19° ± 15° between the primary eigenvectors of the dMRI tensors and the tertiary eigenvectors from the CLARITY neurofilament stain. We also demonstrate evidence that vascular compartments do not affect the dMRI orientation estimates by showing an apparent lack of correspondence (mean angular difference = 49° ± 23°) between the orientation of the dMRI tensors and the structure tensors in the vasculature stained CLARITY images. In a macaque brain dataset, we examine how the CLARITY feature extraction depends on the chosen feature extraction parameters. By varying the volume of tissue over which the structure tensor estimates are derived, we show that orientation estimates are noisier with more spurious ODF peaks for sub-voxels below 30 μm3 and that, for our data, the optimal gray matter sub-voxel size is between 62.5 μm 3 and 125 μm 3. The example experiments presented here represent an important advancement towards robust multi-modal MRI-CLARITY comparisons.
登录
查看更多内容
影响因子：
5.7
作者：
Khan AR;Cornea A;Leigland LA;Kohama SG;Jespersen SN;Kroenke CD
通讯作者：
Kroenke CD
影响因子：
4.6
作者：
Lee E;Choi J;Jo Y;Kim JY;Jang YJ;Lee HM;Kim SY;Lee HJ;Cho K;Jung N;Hur EM;Jeong SJ;Moon C;Choe Y;Rhyu IJ;Kim H;Sun W
通讯作者：
Sun W
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
4.8
作者：
Dyrby, Tim B.;Baare, William F. C.;Sogaard, Lise V.
通讯作者：
Sogaard, Lise V.
影响因子：
5.7
作者：
Dyrby, Tim B.;Innocenti, Giorgio M.;Lundell, Henrik
通讯作者：
Lundell, Henrik