EMBO Practical Course - Measuring Translational Dynamics by Ribosome Profiling - Postponed

Location & dates EMBL Heidelberg, Germany 3 - 9 May 2020

Deadlines Application closed

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

Got something to say? Tweet it with #EMBORiboProf

Day 1 - Sunday 3 May 2020
Time	Speaker	Location
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
Time	Speaker	Location
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
Time	Speaker	Location
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
Time	Speaker	Location
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
Time	Speaker	Location
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
Time	Speaker	Location
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
Time	Speaker	Location
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