EMBO workshop 2018

Dynamo will be used for the subtomogram averaging part of the EMBO course on Image Processing for CryoEM data.

Data sets

In the directory XXX there are folders with real data sets. Data sets:

• Tomogram 1 is called crop.rec. The data is a fraction of a tomogram. The full tomogram was used in "Cryo-electron tomography reveals novel features of a viral RNA replication compartment." (Ertel et al.), and represents several FHV viruses docked in the outer membrane of a mitochondrion. Data can be downloaded here

• Tomogram 2 is called t20s.mrc. The tomogram visualises purified T20S proteasome in solution. Data can be downloaded here

Program

Tuesday September 4th

General Introduction

Guided presentation:

• Basic Dynamo jargon
• tutorial on basic elements: help, data and metadata formats.
• tutorial on the basic concept in Dynamo alignment: the project.

after the coffee break

Working on your own

• Basic walkthrough: creating a catalogue, picking particles, launching a project.

Wednesday September 5th

Introduction

Guided presentation:

• Walkthrough on template matching
• Overview discussion of Advanced starters guide

after the coffee break

Working on your own

• Walkthrough for Advanced starters guide

Thursday September 6th:

Introduction

Guided presentation

• Overview discussion with XXX computing modi, with focus on GPUs (EMBO GPUs link).
• Walkthrough for lattices on vesicles extraction of particles from densely packed spherical geometry.
• Overview discussion of VLP project.

Working own your own:

• Walkthrough for VLP project: getting a structure from multiple tomograms of HIV capsids.

Instructors

• Dustin Morado, MRC-LMB, Cambridge, UK.

• Paula Navarro, C-CINA, University of Basel, Switzerland.

• Giulia Zanetti, Birkbeck College, London, UK.