SCALE Science Lunch Seminar – Dr. William Wan (Vanderbilt University, US)

  • 2024-05-15
  • 12:30 am
  • Lecture Hall, Max Planck Institute of Biophysics and via ZOOM

Recent Developments in Cryo-Electron Tomography Image Processing

Cryo-electron tomography (cryo-ET) and subtomogram averaging (STA) are becoming key tools in characterizing subcellular assemblies and macromolecular structures in near-native environments, such as cellular sections. As such, the number of both users and software developers is increasing. With this expansion of the cryo-ET field, a number of challenges are becoming apparent, including difficulties in optimizing data processing pipelines, increasing computational costs, and data sharing and reuse.

Here, I will describe recent developments in two software packages developed in my lab. TOMOMAN (TOMOgram MANager) is a software package that facilitates the optimization of cryo-ET data processing pipelines by interfacing with external packages and storing essential metadata. This metadata tracking has also enabled multi-institutional collaborations for processing large datasets, such as a recent ~1800 tomogram dataset of Chlamydomonas reinhardtii, as well as facilitated data deposition into archives for reuse by the wider community. We also develop STOPGAP, a package for STA tasks including template matching, subtomogram alignment, and classification. STOPGAP focuses on giving users a high degree of control during STA while also providing powerful and efficient algorithms. Together, our software provides tools that complement the current software landscape, and emphasize user control, computational efficiency, and open data sharing.

The SCALE lunch seminar will take place in a hybrid form. All interested are invited to attend in person at the lecture hall of the MPI-BP with a light lunch in the atrium afterwards. At the same time, the lecture will also be streamed online via ZOOM.

Zoom link: https://uni-frankfurt.zoom.us/j/97193552271?pwd=Q1hMU0IwTzVoUmlpN3o1cjZ5VVlxUT09

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