Cryo-electron tomogram on a navy background with text: Cryo-ET Data Processing Workshop. June 9-13, 2024
Sunday, June 9, 2024 - 08:00:00am - Thursday, June 13, 2024 - 06:00:00pm

2024 Cryo-Electron Tomography Data Processing Workshop

University of Michigan, Ann Arbor
Audience This is a public event.

Registration is now closed.

Cryo-electron tomography is a rapidly evolving structural technique used to calculate 3D structures of biological specimens in vitro and within cells, i.e., in situ. The power of this approach is its ability to chart native cellular landscapes at high resolutions. Technological developments in microscopes, cameras, and computation make it possible to determine sub-10 Å 3D structures at molecules directly within cells. 

This four-day workshop will introduce participants to the image processing work-flow used to analyze tilt-series data and mine its structural information. Working with instructors, participants will learn how to independently use software packages such as Warp/M, IMOD, STOPGAP, tomoDRGN and Amira. The course will cover all aspects of cryo-ET data processing, including tilt-series alignment, tomogram reconstruction, particle picking, subtomogram averaging, and segmentation. The class will use the in situ ribosome dataset (Tegunov et al., Nature Methods, 2021) for all processing steps except for segmentation. Segmentation protocols will be taught using a mammalian cell tomogram provided to all participants.

Participant Requirements:

  • Laptop computer
  • Watch Dr. Jensen's Caltech online cryo-EM course before arriving
  • Experience collecting cryo-ET data and familiarity with the SerialEM data format will be beneficial.

Instructors

Shyamal Mosalaganti, Ph.D.
Research Assistant Professor, U-M Life Sciences Institute
Assistant Professor of Cell and Developmental Biology, U-M Medical School
Assistant Professor of Biophysics, U-M College of Literature, Science, and the Arts
Michael Cianfrocco, Ph.D.
Research Assistant Professor, U-M Life Sciences Institute
Assistant Professor, Department of Biological Chemistry, U-M Medical School
Melanie Ohi, Ph.D.
Rowena G. Matthews Collegiate Professor in the Life Sciences
Research Professor and Cryo-EM Facility Faculty Director, U-M Life Sciences Institute
Professor of Cell and Developmental Biology, U-M Medical School
Jay Brito Querido, Ph.D.
Jay Brito Querido, Ph.D.
Research Assistant Professor, Life Sciences Institute
Assistant Professor, Biological Chemistry, U-M Medical School

Guest Lecturers

Benjamin A. Barad, Ph.D.
Assistant Professor, Chemical Physiology and Biochemistry
Oregon Health & Science University Medical School
Alister Burt, Ph.D.
Computational Scientist, Genentech
Barrett Powell
Massachusetts Institute of Technology
William Wan, Ph.D.
Assistant Professor of Biochemistry, Vanderbilt School of Medicine