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Measuring Translational Dynamics by Ribosome Profiling – Course and Conference Office

EMBO Practical Course

Measuring Translational Dynamics by Ribosome Profiling

Overview

EMBL is committed to sharing research advances and sustaining scientific interaction throughout the coronavirus pandemic. We are delighted to announce that the course is going virtual and invite you to join us online.

Course Overview

Regulation of translation is a key layer in the control of gene expression, playing a critical role in many biological and pathophysiological settings. In the last decade, methodological advances have provided comprehensive insights into cellular transcriptomes and proteomes, however, the systems-wide analysis of translation has remained an unsolved experimental challenge. The recent advent of ‘ribosome-profiling’ has provided the methodological basis for comprehensive transcriptome-wide analyses of translation at sub-codon resolution by the precise and high-throughput determination of ribosomal positions on mRNA. Its application in a variety of organisms yielded novel insights into protein synthesis and its dynamic regulation, significantly advancing our understanding of the post-transcriptional regulation of gene expression. This practical course will combine theoretical sessions with hands-on experimentation and computation emphasising the key steps of the protocol and computational quality control.

Speakers and Trainers

Speakers

Marina Rodnina

Marina Rodnina

Max Planck Institute for

Biophysical Chemistry

Germany

Trainers

Yeji Kim

Yeji Kim

University of Bern

Switzerland

Olga Sin

Olga Sin

University of Bern

Switzerland

Scientific Organisers

Course Organisers

Programme

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  • The virtual course starts on Friday 30 April with an onboarding session, then run from Monday 17 to Friday 21 May with the regular programme, and conclude on Tuesday 25 May, after the Pfingsten / Pentecost public holiday.
  • Information on the live stream and access to the discussion platform will be provided shortly before the start of the event.
  • Access to the recorded talks will be available for 2 weeks after the end of the event.

All times in the programme below are shown as the time in Europe (Berlin, Amsterdam Paris).

To find out the equivalent time zone in your location, enter Berlin, the programme date and time along with your city into the Time Zone Converter.

Day 0 – Friday 30 April 2021
Time (Europe/Berlin)Speaker
10:30 – 12:00Onboarding and technical troubleshooting

Day 1 – Monday 17 May 2021
Time (Europe/Berlin)Speaker
12:45 – 13:00Check-in and overview of the day
13:00 – 13:15Welcome, housenotes and course overview
13:15 – 14:30Icebreaker activity (flashtalks)
14:30 – 14:45Break
14:45 – 15:30Interactive practical session
Live Q&A based on pre-recorded video practical

Sebastian Leidel – University of Bern, Switzerland 
15:30 – 15:45Break
15:45 – 16:45Student presentations
16:45 – 17:00Break
17:00 – 17:30Social programme: Online speed networking

Day 2 – Tuesday 18 May 2021
Time Europe/Berlin)Speaker
12:45 – 13:00Check-in and overview of the day
13:00 – 13:30Live Q&A session to pre-recorded talk
State of the art and future developments in ribosome profiling

Nicholas Ingolia – University of California, Berkeley, USA
13:30 – 14:00Live Q&A session to pre-recorded talk
Biophysical approaches for measuring translational dynamics

Marina Rodnina – Max Planck Institute for Biophysical Chemistry, Germany
14:00 – 14:15Break
14:15 – 15:00Interactive practical session
Live Q&A based on pre-recorded video practical

Jan Medenbach – University of Regensburg, Germany
15:00 – 15:30Break
15:30 – 16:00Live Q&A session to pre-recorded talk
Probing ribosomal stalling

Rachel Green – Johns Hopkins School of Medicine, USA
16:00 – 17:00Student presentations
17:00 – 17:45Social programme: Online Pictionary
Day 3 – Wednesday 19 May 2021
Time (Europe/Berlin)Speaker
12:45 – 13:00Check-in and overview of the day
13:00 – 13:30Live Q&A session to pre-recorded talk
Current applications: Translational regulation in proliferation and tumorigenesis

Anne Willis – University of Cambridge, UK
13:30 – 14:00Live Q&A session to pre-recorded talk 
TCP-Seq and applications

Thomas Preiss – Australian National University, Australia
14:00 – 14:15Break
14:15 – 16:00Interactive breakout session with experts
16:00 – 16:15Break
16:15 – 17:15Student presentations
Day 4 – Thursday 20 May 2021
Time (Europe/Berlin)Speaker
12:45 – 13:00Check-in and overview of the day
13:00 – 13:30Live Q&A session to pre-recorded talk
RIBO-seq applications in proteogenomics

Gerben Menschaert – Ghent University, Belgium
13:30 – 13:45Break
13:45 – 15:15Interactive practical session with trainers
Facilitator: Pavel Baranov – University College Cork, Ireland

Trainers:
Alla Fedorova – University College Cork, Ireland
Darren Fenton – University College Cork, Ireland
Stephen Kiniry – University College Cork, Ireland
Audrey Michel – University College Cork, Ireland
Jack Tierney – University College Cork, Ireland
Oza Zaheed Maheswaran – University College Cork, Ireland
15:15 – 15:30Break
15:30 – 17:00Interactive practical session with trainers (continued)
Facilitator: Pavel Baranov – University College Cork, Ireland

Trainers:
Alla Fedorova – University College Cork, Ireland
Darren Fenton – University College Cork, Ireland
Stephen Kiniry – University College Cork, Ireland
Audrey Michel – University College Cork, Ireland
Jack Tierney – University College Cork, Ireland
Oza Zaheed Maheswaran – University College Cork, Ireland
Day 5 – Friday 21 May 2021
Time (Europe/Berlin)Speaker
12:45 – 13:00Check-in and overview of the day
13:00 – 13:45Live lecture with Q&A 
Introduction to sequencing technology

Vladimir Benes – EMBL Heidelberg, Germany
13:45 – 14:30Discussion round
Future technological applications and new strategies for data analysis

Moderator: Vladimir Benes – EMBL Heidelberg, Germany

Panellists:
Pavel Baranov – University College Cork, Ireland
Sebastian Leidel – University of Bern, Switzerland
Jan Medenbach – University of Regensburg, Germany
Elisabeth Zielonka – EMBL Heidelberg, Germany
14:30 – 15:00Social networking: Virtual pub quiz
15:00 – 16:00Student presentations
Day 6 – Tuesday 25 May 2021
Time (Europe/Berlin)Speaker
12:45 – 13:00Check-in and overview of the day
13:00 – 14:30Student assignment presentations
14:30 – 14:45Break
14:45 – 16:15Student assignment presentations (continued)
16:15 – 16:30Break
16:30 – 17:15Interactive session
Course wrap-up
:
– General questions
– Take away message for participants
– Short feedback round
17:15 – 17:30Winners announcement and farewell
17:30End of course

Practical information

Financial Assistance

Financial Assistance

Registration Fee Waivers

All academic and student registrants are invited to apply for a registration fee waiver, provided by the EMBL Advanced Training Centre Corporate Partnership Programme and EMBO. The registration fee waiver covers the registration sum that you have paid to attend the meeting. Conference participants are not required to pre-pay the registration fee to be selected for a fee waiver for a virtual meeting. If you have already paid the registration fee and are awarded a fee waiver, it will be reimbursed after the meeting. Course participants are required to pay the course fee in advance, which will then be reimbursed after the recipient has attended the course.

Childcare Grants

For participants and speakers with childcare responsibilities there is the possibility to apply for a grant, provided by the EMBL Advanced Training Centre Corporate Partnership Programme and EMBO, to offset childcare costs incurred when participating at a virtual event. Eligible costs include fees for a babysitter or childcare facility or travel costs for a care giver. Please note that priority will be given to early stage researchers. Costs will be reimbursed after the meeting only once a reimbursement form and original receipts have been received. Attendance at the event is required in order to be eligible to receive the reimbursement. In order to apply for this grant, you must be registered by the abstract submission deadline.

Boehringer Ingelheim Fonds Travel Grant

Applies to selected courses only. Availability will be indicated during the abstract or motivation letter submission process.

This grant covers costs related to your attendance to the course (registration, travel and accommodation costs). The grant is restricted to PhD students and postdocs who conduct basic biomedical research.
Whether you are eligible to apply for a travel grant, depends on when you received your university entrance qualification (e.g. Abitur, A-Levels, High School Diploma, Final State Examination):

– for PhD and MD students, as well as graduates, the university entrance qualification must not have been obtained more than 11 years ago at the time of the envisaged course
– for postdocs, the university entrance qualification must not have been obtained more than 13 years ago at the time of the envisaged course

Application

Applications for financial assistance can be submitted via the submission portal* (for the submission of abstracts for conferences or the submission of motivation letters for courses) by completing the Financial Assistance Application Section (underneath the section for entering abstract/motivation letter information). The link to the portal can be found in the registration confirmation email that you will receive after registering for the conference or course.

For conferences, if you are not submitting an abstract, you can still apply for financial assistance in the submission portal by following the instructions here. Note that priority will be given to those submitting an abstract to present at the conference. In your application you will be asked to answer questions regarding your motivation for applying, and, for registration fee waivers, the reasons 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 some events, applications for Childcare Grants will still be done by email. Information about the grant will be sent out shortly after the abstract/motivation letter deadline. Please contact the event Conference Officer if you have any questions.

Selection

The scientific organisers will select the recipients of registration fee waivers during the abstract selection process for conferences and the participant selection process for courses. Results will be announced approximately 3 – 4 weeks before the event start date. Selection results do not impact your admission to the meeting. Registration fee waiver selection is based on your current work or study location, your motivation for applying, the reasons for needing financial support and the impact this event will have on your career. Childcare grants are allocated based on career stage, with priority given to early stage researchers.

Further details

A list of external funding opportunities can be found here, and information on attending a conference as an event reporter here.

For further information about financial assistance please refer to the FAQ page.

Technical Requirements

Technical Requirements

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. 

Zoom will be used for the live talks and Q&A sessions. More information will be provided closer to the start of the course.

Other Information

While using the software during the course, please make sure you have nothing else using your bandwidth. We recommend using a wired connection.

Virtual Participation Guidelines

Guidelines

Please do:

  • Use the event-specific hashtag as communicated during the event for any related tweets
  • Tweet unless the speaker specifically says otherwise
  • Be mindful of unpublished data
  • Be respectful in tone and content

Please don’t:

  • Share Slack, live stream or poster session links with others
  • Broadcast the conference to unregistered participants
  • Capture, transmit or redistribute data presented at the meeting unless presenter gives explicit consent
  • Use offensive language in your posts
  • Engage in rudeness or personal attacks

Additional information can be found in our Code of Conduct.

Health and well-being

It is important to stay healthy and move around, especially when you are attending an event virtually. We have put together a few coffee break stretches and yoga videos in the events Slack workspace for you to enjoy during the event.

How to ask questions

Questions during and after the talks can be asked in live streaming platform. The chair moderates the questions and shares them with the speaker. If time runs out or you think of a question later, you can use Slack to ask your questions in the dedicated session channels or via direct message.

Time zone

The programme is planned based on Central European Time (CET), unless otherwise stated. As many virtual participants are attending from around the world, we do our best to accomodate as many timezones as possible when creating the programme. Please take your time zone into consideration when planning your attendance.

Sponsors


Event Supporter:

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: 17 - 25 May 2021

Location: Virtual


Deadline(s):

Application: Closed


Contact: Diah Yulianti


EMBL Courses and Conferences are kindly supported by our Corporate Partnership Programme

Founder partners

Corporate partners

Associate partners

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