Related Experiment Video
Updated: May 11, 2026

Using Tomoauto: A Protocol for High-throughput Automated Cryo-electron Tomography
Published on: January 30, 2016
High-precision alignment of electron tomography tilt series using markers formed in helium-ion microscope
M Hayashida1, T Iijima, M Tsukahara
1National Metrology Institute of Japan, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1, Higashi, Tsukuba, Ibaraki 305-8565, Japan. misa-hayashida@aist.go.jp
Abstract:
Tungsten nanodots formed in a helium-ion microscope (HIM) provide a practical means of aligning markers of electron tomography tilt series with a high degree of precision. The nanodots were formed using a HIM equipped with a W(CO)6 gas injection system, enabling the precise placement of the nanodots at desired locations of a sample. Template matching was applied to the markers formed in the HIM to detect the positions automatically. The relation between the positions of the markers and the accuracy of the alignment was also determined in order to achieve precise alignment. The method was applied to the markers in order to reconstruct three-dimensional (3D) images of a rod-shaped specimen that contained a 65-nm-diameter via structure in a Cu/Low-k interconnect.

