Kovacs Julio, Song Junha, Auer Manfred, He Jing, Hunter Wade, Wriggers Willy
Department of Mechanical and Aerospace Engineering, Old Dominion University, Norfolk, Virginia 23529, United States.
Cell and Tissue Imaging, Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Lab, Berkeley, California 94720, United States.
J Chem Inf Model. 2020 May 26;60(5):2626-2633. doi: 10.1021/acs.jcim.9b01111. Epub 2020 Mar 19.
Cryo-electron tomography maps often exhibit considerable noise and anisotropic resolution, due to the low-dose requirements and the missing wedge in Fourier space. These spurious features are visually unappealing and, more importantly, prevent an automated segmentation of geometric shapes, requiring a subjective and labor-intensive manual tracing. We developed a novel computational strategy for objectively denoising and correcting missing-wedge artifacts in homogeneous specimen areas of tomograms, where it is assumed that a template repeats itself across the volume under consideration, as happens in the case of filaments. In our deconvolution approach, we use a template and a map of corresponding template locations, allowing us to compensate for the information lost in the missing wedge. We applied the method to tomograms of actin-filament bundles of inner-ear stereocilia, which are critical for the senses of hearing and balance. In addition, we demonstrate that our method can be used for cell membrane detection.
由于低剂量要求以及傅里叶空间中的缺失楔形，冷冻电子断层扫描图通常表现出相当大的噪声和各向异性分辨率。这些虚假特征在视觉上不吸引人，更重要的是，它们阻碍了几何形状的自动分割，需要主观且耗费人力的手动追踪。我们开发了一种新颖的计算策略，用于在断层扫描图的均匀样本区域中客观地去噪和校正缺失楔形伪影，在此假设模板在考虑的整个体积中重复自身，就像细丝的情况一样。在我们的反卷积方法中，我们使用一个模板和相应模板位置的映射，从而能够补偿在缺失楔形中丢失的信息。我们将该方法应用于内耳静纤毛肌动蛋白丝束的断层扫描图，内耳静纤毛对听觉和平衡感至关重要。此外，我们证明了我们的方法可用于细胞膜检测。
