Scheible Peter, Sazzed Salim, He Jing, Wriggers Willy
Department of Computer Science, Old Dominion University, Norfolk, VA 23529.
Department of Mechanical and Aerospace Engineering, Old Dominion University, Norfolk, VA 23529.
Proceedings (IEEE Int Conf Bioinformatics Biomed). 2021 Dec;2021:2560-2565. doi: 10.1109/bibm52615.2021.9669370.
As automated filament tracing algorithms in cryo-electron tomography (cryo-ET) continue to improve, the validation of these approaches has become more incumbent. Having a known ground truth on which to base predictions is crucial to reliably test predicted cytoskeletal filaments because the detailed structure of the filaments in experimental tomograms is obscured by a low resolution, as well as by noise and missing Fourier space wedge artifacts. We present a software tool for the realistic simulation of tomographic maps () based on a known filament trace. The parameters of the simulated map are automatically matched to those of a corresponding experimental map. We describe the computational details of the first prototype of our approach, which includes wedge masking in Fourier space, noise color, and signal-to-noise matching. We also discuss current and potential future applications of the approach in the validation of concurrent filament tracing methods in cryo-ET.
随着冷冻电子断层扫描（cryo-ET）中自动细丝追踪算法不断改进，对这些方法的验证变得更加迫切。拥有一个可作为预测基础的已知真实情况对于可靠地测试预测的细胞骨架细丝至关重要，因为实验断层图像中细丝的详细结构会因低分辨率、噪声和缺失的傅里叶空间楔形伪影而变得模糊。我们提出了一种基于已知细丝轨迹对断层图像进行逼真模拟的软件工具。模拟图像的参数会自动与相应实验图像的参数匹配。我们描述了该方法第一个原型的计算细节，包括傅里叶空间中的楔形掩蔽、噪声颜色和信噪比匹配。我们还讨论了该方法在验证cryo-ET中并行细丝追踪方法方面当前及潜在的未来应用。
