Location & dates EMBL Heidelberg, Germany 3 - 9 May 2020
Deadlines Application closed
organiser_EMBO_Course_2017

EMBL Courses and Conferences during the Coronavirus pandemic

With the onsite programme paused, many of our events are now being offered in virtual formats.


Registration is open as usual for many events, with back-up plans in place to move further courses and conferences online as necessary. Registration fees for any events affected by the COVID-19 disruption are fully refundable.


More information for participants of events at EMBL Heidelberg can be found here.

Programme

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Day 1 - Sunday 3 May 2020
TimeSpeakerLocation
13:45 - 14:00

Registration

ISG Hotel

from 14:00

Welcome by organisers
Pavel Baranov - University College Cork, Ireland
Sebastian Leidel - University of Bern, Switzerland
Jan Medenbach - University of Regensburg, Germany
Elisabeth Zielonka - EMBL Heidelberg, Germany

ISG Hotel

Ice Breaking Activity
Elisabeth Zielonka - EMBL Heidelberg, Germany

ISG Hotel

Introduction & Course Overview
Pavel Baranov - University College Cork, Ireland
Sebastian Leidel - University of Bern, Switzerland
Jan Medenbach - University of Regensburg, Germany

ISG Hotel

Introduction to speakers and trainers

ISG Hotel

Flash Talk Session

ISG Hotel

from 19:00

Barbecue Dinner

ISG Hotel

Day 2 - Monday 4 May 2020
TimeSpeakerLocation
08:30

Welcome and Housenotes
Yvonne Yeboah - EMBL Heidelberg, Germany

Flex Labs A & B

Overview of the day

Flex Labs A & B

Practical:
Sample preparation and extraction (HEK293 cells and yeast)

Training Lab B

Coffee break

Outside Flex Lab Area

Practical:
Extract quantification, Ribonuclease digestion and start of
ultracentrifugation

Training Lab B

13:00 - 14:00

Lunch break

EMBL Canteen

Computer Class:
QC and raw data processing

Computer Training Lab

Coffee break

Outside Flex Lab Area

Practical:
Gradient fractionation and RNA preparation

Training Lab B

19:00 - 20:00

Dinner

EMBL Canteen

Day 3 - Tuesday 5 May 2020
TimeSpeakerLocation
09:00

Overview of the day

Flex Labs A & B

Practical:
RFP gel and size selection Lab work

Training Lab B

Coffee break

Outside Flex Lab Area

Practical continued:
RFP gel and size selection Lab work

Training Lab B

13:00 - 14:00

Lunch break

EMBL Canteen

Practical:
Gel extraction

Training Lab B

Coffee break

Outside Flex Lab Area

Computer Class:
Mapping footprints to reference sequences. Meta analysis of
the datasets

Computer Training Lab

State of the art and future developments in ribosome profiling
Nicholas Ingolia - University of California, Berkeley, USA

Flex Labs A & B

18:00 - 19:00 Dinner and Round Table Discussion:
The Technology in different species; what are the key quality controls?
EMBL Canteen / ATC Rooftop Lounge
19:00 - 21:00

Poster Session & Discussion I

ATC Helix A

Day 4 - Wednesday 6 May 2020
TimeSpeakerLocation
09:00 Overview of the day

Flex Labs A & B

Practical:
Substrate hybridization, dephosphorylation, linker ligation

Training Lab B

Coffee break

Outside Flex Lab Area

Biophysical approaches for measuring translational dynamics
Marina Rodnina - Max Planck Institute for Biophysical Chemistry, Germany

Flex Labs A & B

12:30 - 13:30

Lunch break

EMBL Canteen

Probing Ribosomal Stalling
Rachel Green - Johns Hopkins School of Medicine, USA

Flex Labs A & B

Coffee break

Outside Flex Lab Area

GeneCore Facility Tour and Introduction to Sequencing Technology
Vladimir Benes - EMBL Heidelberg, Germany

EMBL GeneCore Facility

Computer Class:
Differential gene expression (transcription, translation and protein synthesis)
Computer Training Lab
17:30 Bus to ISG Hotel and Neckarmünzplatz
18:30 - 20:00 Guided tour of Heidelberg Neckarmünzplatz
from 20:00

Course Dinner

Restaurant in downtown Heidelberg

Day 5 - Thursday 7 May 2020
TimeSpeakerLocation
09:00 Overview of the day

Flex Labs A & B

Practical:
Size selection Gel after linker ligation (oligo depletion step)

Training Lab B

Coffee break

Outside Flex Lab Area

Current Applications: Translational regulation in Proliferation and Tumorigenesis
Anne Willis - University of Cambridge, United Kingdom

Flex Labs A & B

12:30 - 13:30

Lunch break

EMBL Canteen

Practical:
Circulation set-up and run

Training Lab B

Coffee break

Outside Flex Lab Area

TCP-Seq and applications
Thomas Preiss - The Australian National University, Australia

Flex Labs A & B

Group activity: Discussion Round:
Future technological applications and new strategies for data analysis

Flex Labs A & B

18:30 - 19:00

Pizza dinner

ATC Rooftop Lounge

19:00 - 20:30

Poster Session & Discussion II

ATC Helix A

Day 6 - Friday 8 May 2020
TimeSpeakerLocation
09:00 Overview of the day

Flex Labs A & B

Practical:
RT reaction

Training Lab B

Coffee break

Outside Flex Lab Area

Computer Class:
Detection of short ORF translation, alternative proteoforms and ribosome pauses

Computer Training Lab

13:00 - 14:00

Lunch break

EMBL Canteen

Practical:
Gel analysis and oligo rRNA depletion

Training Lab B

Coffee break Outside Flex Lab Area
Computer Class:
The use of public data resources

Computer Training Lab

Discussion Round:
Data analysis bottle necks and artefacts; user defined questions

Computer Training Lab

from 18:30

Flammkuchen Dinner

ISG Hotel

Day 7 - Saturday 9 May 2020
TimeSpeakerLocation
09:00 Overview of the day

Flex Labs A & B

Practical:
Ribosome-profiling Quality assessment (Test PCR)

Training Lab B

Coffee break

Outside Flex Lab Area

Genomewide identification of bioactive peptides using RiboSeq and Mass spec
Gerben Menschaert - University of Ghent, Belgium

Flex Labs A & B

12:00 - 13:00

Lunch break

EMBL Canteen

Computer Class:
Detection of non-standard translation events: non-AUG initiation, stop codon readthrough, ribosomal frameshifting

Computer Training Lab

Computer Class:
Integrating ribosome-profiling data with other highthroughput data (mass spec, epitranscriptomics profiling)

Computer Training Lab
Open Discussion and Feedback

Computer Training Lab / Flex Labs A & B

16:30

End of course