Bridget Carragher
New York Structural Biology Center
USA
EMBO Practical Course
Proof of COVID-19 vaccination or recovery is required to attend this on-site course. Please see EMBL’s COVID-19 safety policy for on-site events.
Cryo-electron microscopy (cryoEM) has become the method of choice for determining atomic-level structures of large and flexible macromolecular assemblies that are notoriously difficult to study by other techniques. In addition, it has unique capabilities for obtaining structural information in situ, within complex (cellular) environments, and to deal with biologically heterogeneous samples. With the advent of the cryoEM “resolution revolution”, the method has undergone a tremendous growth in user base. Yet, the underlying methods are complex and under constant development. Therefore, in depth advanced training is essential to ensure future generations can adapt emerging technologies to expand into new areas of biological research. This course provides the theoretical and practical foundations of advanced cryoEM techniques, from sample preparation to data collection to image processing.
To meet the exceptional demand of the field for advanced training, this course is aimed at PhD students and Post Docs with experience in cryoEM and 3D image processing. It will enable them to better apply cryoEM to their cutting-edge research, disseminate their gained expertise to colleagues at their home institution and, eventually, to develop cryoEM methods beyond the state-of-the-art.
During this course we will focus on the following aspects:
After this course, students should have learned advanced topics of cryo-EM/ET data collection and image processing and be able to apply and adapt these techniques for challenging research projects.
“This a world-class course. The access to experts and cutting-edge techniques is incredible.” – Corbin Black, McGill University, Canada
The EMBL Imaging Centre training activities are generously supported by the Boehringer Ingelheim Foundation.
New York Structural Biology Center
USA
The University of Tokio
Japan
University of Washington
USA
Human Technopole
Italy
Lawrence Berkeley National Laboratory
USA
(virtual)
University of Madison
USA
University of Massachusetts Medical School
USA
The Hospital for Sick Children
Canada
EMBL Heidelberg
Germany
MRC Laboratory of Molecular Biology
UK
EMBL Heidelberg
Germany
EMBL Heidelberg
Germany
Max Planck Institute of Biochemistry
Germany
MRC Laboratory of Molecular Biology
UK
EMBL Hamburg
Germany
University of Bern
Switzerland
EMBL Heidelberg
Germany
MRC Laboratory of Molecular Biology
UK
Howard Hughes Medical Institute and University of California, Berkeley
USA
MRC Laboratory of Molecular Biology
UK
EMBL-EBI Hinxton
UK
(virtual)
Genentech
USA
MRC Laboratory of Molecular Biology
UK
MRC Laboratory of Molecular Biology
UK
(virtual)
École Polytechnique Fédérale de Lausanne
Switzerland
EMBL Heidelberg
Germany
Max Planc Institute of Biophysics
Germany
(virtual)
EMBL Heidelberg
Germany
EMBL Heidelberg
Germany
EMBL Heidelberg
Germany
MRC Laboratory of Molecular Biology
UK
École Polytechnique Fédérale de Lausanne
Switzerland
Got something to say? Tweet it with #EMBOCryoEM
Time | Speakers | Location |
---|---|---|
13:45 – 14:00 | Shuttle to EMBL | ISG bus stop |
14:00 – 15:00 | Registration and light refreshments | ATC registration |
15:00 – 15:15 | Introduction and housenote slides Julia Mahamid – EMBL Heidelberg, Germany | Courtyard Room |
15:15 – 15:30 | Course overview Simone Mattei – EMBL Heidelberg, Germany | Courtyard Room |
15:30 – 16:30 | Cutting edge research with Single Particle Analysis Eva Nogales – Howard Hughes Medical Institute and University of California, Berkeley, USA | Courtyard Room |
16:30 – 17:00 | Coffee break | Flex Lab |
17:00 – 18:00 | Cutting edge research with Tomography Giulia Zanetti – Birkbeck College, UK | Courtyard Room |
18:00 – 19:00 | An overview of the past and future of cryoEM Richard Henderson – MRC Laboratory of Molecular Biology, UK | Courtyard Room |
19:00 – 19:45 | Pizza dinner | Rooftop lounge |
19:45 – 21:45 | Student presentations I | Rooftop lounge |
22:00 | Shuttle to ISG Hotel | Bus stop |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 10:00 | Cryo-EM image formation and optics Chris Russo – MRC Laboratory of Molecular Biology, UK | Courtyard Room |
10:00 – 11:00 | Introduction to the microscope Radostin Danev – The University of Tokyo, Japan | Courtyard Room |
11:00 – 12:00 | Fundamentals of image processing and Maximum likelihood approaches Nikolaus Grigorieff – University of Massachusetts Medical School, USA | Courtyard Room |
12:00 – 13:00 | Lunch break | Canteen |
13:00 – 14:00 | Specimen preparation: vitrification and sample supports Lori Passmore – MRC Laboratory of Molecular Biology, UK | Courtyard Room |
14:00 – 15:00 | Handling heterogeneity in cryoEM sample preparation Kelly Nguyen – MRC Laboratory of Molecular Biology, UK | Courtyard Room |
15:00 – 15:30 | Coffee break | Flex Lab |
15:30 – 17:00 | Forces in vitrification, beam damage and phase plates: past and future of cryoEM II Robert Glaeser – Lawrence Berkeley National Laboratory, USA (remote) | Courtyard Room |
17:00 – 18:00 | Panel discussion Discussion leader: Lori Passmore, MRC Laboratory of Molecular Biology, UK | Courtyard Room |
18:00 – 19:00 | Dinner | Canteen |
19:00 – 21:00 | Student presentations II | Rooftop lounge |
21:15 | Shuttle to ISG Hotel | Bus stop |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 10:00 | AI for cryoEM image processing Sjors Scheres – MRC Laboratory of Molecular Biology, UK | Courtyard Room |
10:00 – 11:00 | Handling heterogeneity in cryoEM image processing Sjors Scheres – MRC Laboratory of Molecular Biology, UK | Courtyard Room |
11:00 – 12:00 | Panel discussion Discussion leader: Sebastian Eustermann – EMBL Heidelberg, Germany | Courtyard Room |
12:00 – 13:00 | Lunch break | Canteen |
13:00 – 15:30 | Practical Session 1: Single Particle Analysis | Relion Session 2: Single Particle Analysis | cisTEM Session 3: Single Particle Analysis | cryoSPARC Session 4: Subtomo Analysis | IC 15-104 IC 15-125 IC 15-114 Computer training lab |
15:30 – 16:00 | Coffee break | Flex Lab |
16:00 – 18:00 | Practical Session 1 (continued): Single Particle Analysis | Relion Session 2 (continued): Single Particle Analysis | cisTEM Session 3 (continued): Single Particle Analysis | cryoSPARC Session 4 (continued): Subtomo Analysis | IC 15-104 IC 15-125 IC 15-114 Computer training lab |
18:00 – 19:00 | Vegetarian dinner | Canteen |
19:00 – 21:00 | Student presentations III | Rooftop lounge |
21:15 | Shuttle to ISG Hotel | Bus stop |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 10:00 | Best practices of microscopy for data collection for Single Particle Analysis and Tomography Wim Hagen – EMBL Heidelberg, Germany | Courtyard Room |
10:00 – 11:00 | Practical considerations of initial image processing: on the fly processing Henning Stahlberg – EPFL, Switzerland | Courtyard Room |
11:00 – 12:00 | Panel discussion Discussion leader: Simone Mattei – EMBL Heidelberg, Germany | Courtyard Room |
12:00 – 13:00 | Lunch break | Canteen |
13:00 – 15:30 | Practical Session 1 (continued): Single Particle Analysis | Relion Session 2 (continued): Single Particle Analysis | cisTEM Session 3 (continued): Single Particle Analysis | cryoSPARC Session 4 (continued): Subtomo Analysis | IC 15-125 IC 15-114 IC 15-104 Computer training lab |
15:30 – 16:00 | Coffee break | Flex Lab |
16:00 – 18:00 | Practical Session 1 (continued): Single Particle Analysis | Relion Session 2 (continued): Single Particle Analysis | cisTEM Session 3 (continued): Single Particle Analysis | cryoSPARC Session 4 (continued): Subtomo Analysis | IC 15-125 IC 15-114 IC 15-104 Computer training lab |
18:00 – 19:00 | Dinner | Canteen |
19:00 – 21:00 | Student presentations IV | Rooftop lounge |
21:15 | Shuttle to ISG Hotel | Bus stop |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 10:00 | Automation of single particle EM Bridget Carragher – New York Structural Biology Center, USA | Courtyard Room |
10:00 – 11:00 | Atomic model building and validation Frank DiMaio – University of Washington, USA | Courtyard Room |
11:00 – 12:00 | Panel discussion Discussion leader – Henning Stahlberg, EPFL, Switzerland | Courtyard Room |
12:00 – 13:00 | Lunch break | Canteen |
13:00 – 15:30 | Practical Session 1 (continued): Single Particle Analysis | Relion Session 2 (continued): Single Particle Analysis | cisTEM Session 3 (continued): Single Particle Analysis | cryoSPARC Session 4 (continued): Subtomo Analysis | IC 15-114 IC 15-104 IC 15-125 Computer training lab |
15:30 – 16:00 | Coffee break | Flex Lab |
16:00 – 18:30 | Practical Session 1 (continued): Single Particle Analysis | Relion Session 2 (continued): Single Particle Analysis | cisTEM Session 3 (continued): Single Particle Analysis | cryoSPARC Session 4 (continued): Subtomo Analysis | IC 15-114 IC 15-104 IC 15-125 Computer training lab |
18:30 – 19:30 | Preparation for practicals discussion / Pizza dinner | Rooftop lounge |
19:30-20:00 | CryoEM in Pharma Alexis Rohou – Genentech, USA | Rooftop lounge |
20:00-21:00 | Discussion round: Career Paths in academia, facilities and industry | Rooftop lounge |
21:00 | Walk to ISG Hotel |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 10:00 | Sample preparation for in situ cryo -electron tomography: FIB technology Phillip Erdmann – Human Technopole, Italy | Courtyard Room |
10:00 – 11:00 | Particle localization and extraction in cryo-electron tomograms Beata Turonova – Max Planck Institute of Biophysics, Germany (remote) | Courtyard Room |
11:00 – 12:00 | High resolution subtomogram analysis William Wan – Vanderbilt University, USA | Courtyard Room |
12:00 – 13:00 | Lunch break | Canteen |
13:00 – 13:15 | Group photo | |
13:15 – 14:00 | Preparation for practical presentation | Courtyard Room |
14:00 – 16:00 | Practical discussion Comparing methods, tips and tricks and data interpretation Discussion leader: Sebastian Eustermann – EMBL Heidelberg, Germany | Courtyard Room |
16:00 – 19:00 | City tour and free time | |
19:30 – 21:00 | Downtown dinner |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EBML | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 10:00 | Correlative light and electron microscopy for Structural Cell Biology Wanda Kukulski – University of Bern, Switzerland | Courtyard Room |
10:00 – 10:30 | Sponsor presentations – Thermo Fisher Scientific Christopher Schmid, Martin Obr: High-Resolution and High-Throughput Structural Biology with Electron Cryo-Tomography | Courtyard Room |
10:30-11:00 | Sponsor presentations – CryoSol Giulia Weissenberger: VitroJet: Moving sample preparation into a new era | Courtyard Room |
11:00 – 12:00 | Panel discussion Discussion leader: Julia Mahamid – EMBL Heidelberg, Germany | Courtyard Room |
12:00 – 13:00 | Lunch break | Canteen |
13:00 – 15:30 | Practical Session 5: Single Particle Analysis | Relion Session 6: Single Particle Analysis |cisTEM Session 7: Single Particle Analysis | cryoSPARC Session 8: Subtomo Analysis Session 9: Model Building Session 10: Microscopy and Demos | IC 15-104 IC 15-114 IC 15-125 Computer training lab Helix seminar room B01 Imaging centre |
15:30 – 16:00 | Coffee break | Flex Lab |
16:00 – 18:00 | Practical Session 5 (continued): Single Particle Analysis | Relion Session 6 (continued): Single Particle Analysis | cisTEM Session 7 (continued): Single Particle Analysis | cryoSPARC Session 8 (continued): Subtomo Analysis Session 9 (continued): Model Building Session 10 (continued): Microscopy and Demos | IC 15-104 IC 15-114 IC 15-125 Computer training lab Helix seminar room B01 Imaging centre |
18:00 – 18:30 | Coffee break | Flex Lab |
18:30 – 19:30 | Practical Session 5 (continued): Single Particle Analysis | Relion Session 6 (continued): Single Particle Analysis | cisTEM Session 7 (continued): Single Particle Analysis | cryoSPARC Session 8 (continued): Subtomo Analysis Session 9 (continued): Model Building | IC 15-104 IC 15-114 IC 15-125 Computer training lab Helix seminar room B01 |
19:30 – 20:00 | Walk to ISG Hotel | |
20:00-21:30 | Dinner and continued discussion | ISG hotel |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 09:30 | Sponsor presentations – Oxford Instruments | Courtyard Room |
09:30 – 10:00 | Sponsor presentations – Gatan | Courtyard Room |
10:00 – 10:30 | Coffee break | Flex lab |
10:30 – 12:30 | Practical Session 5 (continued): Single Particle Analysis | Relion Session 6 (continued): Single Particle Analysis |cisTEM Session 7 (continued): Single Particle Analysis | cryoSPARC Session 8 (continued): Subtomo Analysis Session 9 (continued): Model Building Session 10 (continued): Microscopy and Demos | IC 15-104 IC 15-114 IC 15-125 Computer training lab Helix seminar room B01 Imaging centre |
12:30 – 13:30 | Lunch break | Canteen |
13:30 – 16:00 | Practical Session 5 (continued): Single Particle Analysis | Relion Session 6 (continued): Single Particle Analysis |cisTEM Session 7 (continued): Single Particle Analysis | cryoSPARC Session 8 (continued): Subtomo Analysis Session 9 (continued): Model Building Session 10 (continued): Microscopy and Demos | IC 15-104 IC 15-114 IC 15-125 Computer training lab Helix seminar room B01 Imaging centre |
16:00 – 16:30 | Coffee break | Flex Lab |
16:30 – 18:30 | Practical Session 5 (continued): Single Particle Analysis | Relion Session 6 (continued): Single Particle Analysis |cisTEM Session 7 (continued): Single Particle Analysis | cryoSPARC Session 8 (continued): Subtomo Analysis Session 9 (continued): Model Building | Courtyard Room Computer training lab Meeting room B11 Helix seminar room B01 Helix seminar room A01 |
18:30 – 19:30 | Dinner | Canteen |
19:30 – 20:30 | Discussion round: Recent breakthroughs and emerging technologies | Courtyard Room |
20:30 | Walk to ISG |
Time | Speakers | Location |
---|---|---|
08:35 | Shuttle to EMBL | ISG bus stop |
08:50 – 09:00 | Overview of the day | Courtyard Room |
09:00 – 09:30 | Sponsor presentation – Kleindiek | Courtyard Room |
09:30 – 10:30 | Fitting of low-resolution EM maps and integrative structure determination Jan Kosinski – EMBL Hamburg, Germany | Courtyard Room |
10:30- 11:30 | In-cell Structural Biology Julia Mahamid – EMBL Heidelberg, Germany | Courtyard Room |
11:30 – 12:00 | Coffee break | Flex lab |
12:00 – 13:00 | Importance of Data Sharing, structural databases and FAIR principles Ardan Patwardhan – EMBL-EBI Hinxton, UK (remote) | Courtyard Room |
13:00 – 14:00 | Wrap up with emphasis on the future of cryoEM, responsible practice, reporting and validation standards | Courtyard Room |
14:00 – 14:30 | Packed lunch and departure | |
14:30 | Bus to train station | Bus stop |
The course is limited to up to 24 participants. For selection purposes, please note that your application will not be considered without a letter of motivation.
Registration fees include admission, course materials, COVID-19 safety measures, meals and coffee breaks.
This EMBO course includes accommodation and transportation to and from the ISG Hotel to the venue.
Academia | €500 |
PhD Student | €500 |
Industry | €1000 |
The registration fee should be paid only after acceptance to the course. The results will be announced approximately 2-3 weeks after the application deadline.
After you have logged in and successfully registered, you will receive an email asking you to submit your motivation letter. Click on the link provided and enter your motivation letter in the text box provided. Alternatively you can submit your motivation letter by clicking on the link on the confirmation page directly after registering.
Instructions
Please note:
For more detailed information, follow the instructions provided in our video on how to submit a course motivation letter.
For further information about registration and motivation letter submission please refer to the FAQ page.
Limited financial assistance is provided by the EMBL Advanced Training Centre Corporate Partnership Programme and EMBO in the form of both registration fee waivers and travel grants. Availability is limited to participants attending on-site events in Heidelberg and will be indicated during the abstract or motivation letter submission process.
Your place in the meeting is only confirmed by paying the registration fee, which is mandatory even when receiving a fee waiver.
The fee waiver will cover the registration sum that you have paid to attend the course or conference.
The travel grant will cover the cost of travel (airfare, train, bus, taxi, accommodation, visa, and/or registration fees*) and is provided up to specified caps which are normally as follows:
– up to €400 for participants travelling to an EMBL Course, EMBL Conference or EMBO|EMBL Symposium from within Europe.
– up to €1000 for participants travelling to an EMBL Course, EMBL Conference or EMBO|EMBL Symposium from outside Europe.
– up to €500 for any participant travelling to an EMBO Practical Course or EMBO Workshop.
– up to €1000 for any participant working in Chile, India, Singapore or Taiwan travelling to an EMBO Practical Course or EMBO Workshop.
*Registration fees are only covered for EMBO Practical Courses or EMBO Workshops
The organisers may reduce the grant cap to accommodate more participants. Recipients will be notified of their travel cap amount when they are informed of the outcome of their application. Original receipts must be provided with your signature for all costs incurred within two months of completion of travel. Scanned copies cannot be accepted.
For EMBO Practical Course or EMBO Workshop participants with children, there is the possibility to apply for a childcare grant to offset child care costs incurred by participants or speakers when participating at a course or conference. Eligible costs include fees for a baby-sitter or child-care facility, travel costs for a care giver, or travel costs for taking the child to the meeting etc. Please note that priority will be given to early stage researchers. A maximum amount of 500 EUR can be awarded per participant applying for an EMBO Childcare Grant. In order to apply for this grant for EMBO Workshops, you must be registered by the abstract submission deadline.
You may apply for financial assistance when submitting your motivation letter for courses, and abstract for conferences. In your application you will be asked to answer questions regarding why your lab cannot fund your attendance and how your attendance will make a difference to your career. Application for financial support will not affect the outcome of your registration application.
For the Boehringer Ingelheim Fonds Travel Grant, there is a pre-application question during the motivation letter submission process, and if selected you will be requested to complete a standard form and documentation consisting of your travel expense estimation.
The scientific organisers will select the recipients of all financial assistance during the motivation letter or abstract selection process. Results will be announced approximately 6-8 weeks before the event start date, however for some events this may be delayed. Selection results do not impact your admission to the meeting. Selection is based on your current work or study location, the reasons for needing financial support and the impact this event will have on your career.
Costs will be reimbursed after the meeting only once a reimbursement form and original receipts (from travel costs) have been received.
View our list of external funding opportunities and information on attending a conference as an event reporter.
For further information about financial assistance please refer to the FAQ page.
Accommodation has been pre-booked for you at the ISG Hotel for the default dates of 21 to 29 August (8 nights). Please note that the course registration fee includes coverage of accommodation costs in twin rooms, including breakfasts, for your stay at the ISG but that you will be required to pay an additional cost of 21 EUR per night for a single room. This should be paid by you directly to the ISG during your stay. Any additional nights need to be booked and paid for by you. We recommend that all course participants stay at the ISG Hotel which is the dedicated hotel for the course.
Shuttle buses will go from the ISG Hotel to EMBL and back, mornings and evenings. A bus schedule and location of the bus stops will be made available prior to the meeting.
Address: EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany
For further information on getting to EMBL Heidelberg visit our Travel Information page.
For enquiries about accommodation and local transportation please refer to the FAQ page.
The EMBL eCampus learning platform will be used to collaborate, communicate and network with all of the course participants. All participants will receive information on how to join shortly before the course. We recommend using Chrome, Safari or Mozilla Firefox browsers for eCampus.
Please find additional information including FAQs, terms and conditions, COVID-19 safety policy and travelling to EMBL on our Information for Participants page.
COVID-19 information for on-site events at EMBL Heidelberg can be found in our COVID-19 FAQs.
Sponsorship opportunities
We offer a variety of event sponsoring possibilities, with the flexibility to select a set sponsorship package or combine individual sponsorship options to suit your event budget. Discounts are available for companies sponsoring multiple events at EMBL Heidelberg. View other conferences, or contact sponsorship@embl.de for further information.
If you are interested in becoming a media partner of this event, please visit our media partnerships webpage.
Date: 21 - 29 Aug 2022
Location: EMBL Heidelberg
Venue: EMBL Advanced Training Centre and EMBL Imaging Centre
Deadline(s):
Application: Closed
Organisers:
Contact: Iva Gavran