Registration is now closed.
The NCCR TransCure Single Particle Cryo-EM workshop took place at C-CINA, Mattenstrasse 26, 4058 Basel, Switzerland, starting Wednesday, August 22 until Friday, August 24, 2018.
The workshop introduced all aspects of the single particle cryo-EM pipeline. This includes sample preparation, electron microscopy hardware, electron microscopy data collection schemes, image processing algorithms, estimation and correction of electron microscopy parameters during images processing, particle picking, 3D protein reconstruction, resolution estimation, data handling, and model building. Morning lectures will introduce the theoretical aspects of cryo-EM. Afternoon practicals on provided or own computers introduced single particle image processing. The workshop targeted PhD students and PostDocs that have some basics knowledge of structural biology and/or electron microscopy.
Registration is now closed.
Please note that the travel and lodging are not covered in the workshop registration fee and participants will have to arrange it by themselves. We recommend the following hostels:
The workshop will take place in C-CINA of the Biozentrum of the University of Basel. This is NOT in the Biozentrum, but in the northern part of Basel, in Mattenstrasse 26, 4058 Basel. Practical lectures will be held in the Misrock Seminar Room in the ground floor of the building.
Lunch vouchers are valid in the canteen of the Rosenthal campus (close to C-CINA)
A demo on the C-CINA electron microscopes is part of the workshop.
A computer hands-on practical will take place in the Biozentrum in Klingelbergstrasse 70, in Room U1075.
Henning Stahlberg, C-CINA, Biozentrum, University of Basel
Kaspar Locher, ETH Zürich
Karen Bergmann, C-CINA, Biozentrum, University of Basel.
Ariane Fecteau-LeFebvre, C-CINA
Carola Alampi, BioEM Lab, C-CINA
Dongchun Ni, C-CINA
Henning Stahlberg, C-CINA
Ioannis Manolaridis, ETH Zürich
Julia Kowal, ETH Zürich
Kaspar Locher, ETH Zürich
Lubomir Kovalczik, C-CINA
Mohamed Chami, BioEM Lab, C-CINA
Paula Navarro, C-CINA
Philippe Ringler, C-CINA
Ricardo Adaixo, C-CINA
Ricardo Guerrero, C-CINA
Ricardo Righetto, C-CINA
Stefan Albiez, C-CINA
Biozentrum of the University of Basel
C-CINA of the Biozentrum of the University of Basel
Wednesday, August 22, 2018 | |||
9:00 | Registration, Coffee | C-CINA, Mattenstrasse 26, 4058 Basel | |
10:00 | Welcome | Locher and Stahlberg | C-CINA, Misrock |
10:15 | Lecture Overview of Cryo-EM | Henning Stahlberg | C-CINA, Misrock |
11:00 | Lecture Sample Preparation | Philippe Ringler | C-CINA, Misrock |
11:45 | Lecture Grid Freezing | Mohamed Chami | C-CINA, Misrock |
12:30 | Lunch | Rosental SV Cantine | |
14:00 | Lecture EM Hardware | Ariane Fecteau-LeFebvre | C-CINA, Misrock |
15:00 | Demos at Electron Microscopes. Groups rotate:
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Philippe Ringler Carola Alampi Mohamed Chami Lubomir Kovaczik Ricardo Guerrero |
C-CINA Basement |
18:45 | Dinner | C-CINA, Science Lounge, 7th floor | |
19:00 | Selected talks by students (during dinner in Science lounge) | C-CINA, Science Lounge, 7th floor | |
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Thursday, August 23, 2018 | |||
9:15 | Welcome, Coffee | C-CINA, Mattenstrasse 26, 4058 Basel | |
10:00 | Lecture Overview data processing algorithms | Henning Stahlberg | C-CINA, Misrock |
10:45 | Lecture Online Processing during data collection | Henning Stahlberg | C-CINA, Misrock |
11:30 | Lecture Drift correction, CTF Fitting, Particle picking | Ricardo Adaixo | C-CINA, Misrock |
12:20 | Group Photo taking | ||
12:30 | Lunch | ||
14:00 | Lecture Single particle cryo-EM reconstruction with cisTEM | Ricardo Righetto | C-CINA, Misrock |
14:45 | Transfer to Biozentrum (Klingelbergstr. 70, Basel) | ||
15:00 | Hands-on Practical, cryo-EM image processing with cisTEM. 10 groups of 2 students each. | Ricardo Righetto Dongchun Ni Ricardo Adaixo Stefan Albiez |
Computer room U1075, Pharmazentrum |
18:00 | Free time | ||
19:00 | Dinner downtown | Italian Restaurant "Centro" Streitgasse 20, Basel (GoolgeMaps Link) |
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Friday, August 24, 2018 | |||
8:30 | Welcome, Coffee | C-CINA, Mattenstrasse 26, 4058 Basel | |
9:00 | Lecture Introduction to Data Processing with cryoSPARC | Ricardo Adaixo | C-CINA, Misrock |
10:00 | Lecture Resolution Analysis: FSC, ResMap, local resolution filtration, visualization | Ricardo Righetto | C-CINA, Misrock |
11:00 | Lecture on Different Geometries for Single Particle Processing: 2D crystals and helical samples | Henning Stahlberg | C-CINA, Misrock |
11:30 | Lecture on Electron Tomography Sub-Volume Averaging | Paula Navarro | C-CINA, Misrock |
12:00 | Lunch | ||
13:30 | Lecture Model Building | Julia Kowal | C-CINA, Misrock |
14:15 | Lecture Specific Application Case: ABC transporters | Ioannis Manolaridis | C-CINA, Misrock |
14:45 | Lecture The Role of Cryo-EM in Membrane Protein Research | Kaspar Locher | C-CINA, Misrock |
15:30 | Workshop Summary, Snacks, and departure. | Locher and Stahlberg | C-CINA, Misrock |