Sergejeva Marina, Papp Eszter A, Bakker Rembrandt, Gaudnek Manuel A, Okamura-Oho Yuko, Boline Jyl, Bjaalie Jan G, Hess Andreas
Institute of Experimental and Clinical Pharmacology and Toxicology, Friedrich-Alexander University, Fahrstr. 17, 91054 Erlangen, Germany.
Department of Anatomy, Institute of Basic Medical Sciences, University of Oslo, P.O. Box 1105, Blindern, 0317 Oslo, Norway.
J Neurosci Methods. 2015 Jan 30;240:161-9. doi: 10.1016/j.jneumeth.2014.11.005. Epub 2014 Nov 18.
Assignment of anatomical reference is a key step in integration of the rapidly expanding collection of rodent brain data. Landmark-based registration facilitates spatial anchoring of diverse types of data not suitable for automated methods operating on voxel-based image information.
Here we propose a standardized set of anatomical landmarks for registration of whole brain imaging datasets from the mouse and rat brain, and in particular for integration of experimental image data in Waxholm Space (WHS).
Sixteen internal landmarks of the C57BL/6J mouse brain have been reliably identified: by different individuals, independent of their experience in anatomy; across different MRI contrasts (T1, T2, T2(*)) and other modalities (Nissl histology and block-face anatomy); in different specimens; in different slice acquisition angles; and in different image resolutions. We present a registration example between T1-weighted MRI and the mouse WHS template using these landmarks and reaching fairly high accuracy. Landmark positions identified in the mouse WHS template are shared through the Scalable Brain Atlas, accompanied by graphical and textual guidelines for locating each landmark. We identified 14 of the 16 landmarks in the WHS template for the Sprague Dawley rat.
This landmark set can withstand substantial differences in acquisition angle, imaging modality, and is less vulnerable to subjectivity.
This facilitates registration of multimodal 3D brain data to standard coordinate spaces for mouse and rat brain taking a step toward the creation of a common rodent reference system; raising data sharing to a qualitatively higher level.
解剖学参考的确定是整合快速增长的啮齿动物脑数据的关键步骤。基于地标的配准有助于对不适合基于体素的图像信息进行自动处理的各种类型的数据进行空间定位。
在此，我们提出了一套标准化的解剖学地标，用于小鼠和大鼠全脑成像数据集的配准，特别是用于将实验图像数据整合到Waxholm空间（WHS）中。
已可靠地识别出C57BL/6J小鼠脑的16个内部地标：不同个体均可识别，与他们的解剖学经验无关；跨越不同的MRI对比度（T1、T2、T2*）和其他模态（尼氏组织学和块面解剖）；在不同的标本中；在不同的切片采集角度；以及在不同的图像分辨率下。我们展示了一个使用这些地标将T1加权MRI与小鼠WHS模板进行配准的示例，并且达到了相当高的精度。在小鼠WHS模板中识别出的地标位置通过可扩展脑图谱共享，并附有用于定位每个地标的图形和文本指南。我们在斯普拉格-道利大鼠的WHS模板中识别出了16个地标中的14个。
这套地标能够承受采集角度、成像模态的显著差异，并且不易受到主观性的影响。
这有助于将多模态3D脑数据配准到小鼠和大鼠脑的标准坐标空间，朝着创建通用的啮齿动物参考系统迈出了一步；将数据共享提升到了一个质的更高水平。
