Location & dates EMBL Heidelberg, Germany 14 - 18 Jan 2019
Deadlines Application closed
organiser_Nanopore

Programme

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Day 1 - Monday 14 January 2019
TimeSpeakerLocation
12:00

Lunch (optional)

EMBL Canteen

12:45 - 13:00

Registration

Flex Labs A & B

13:00 - 14:00

Welcome & Introduction

Flex Labs A & B

14:00 - 15:00

Flash Talk Session

Flex Labs A & B

15:00 - 15:30

Coffee break

Outside Training Lab Area
15:30 - 16:30

Introduction to Nanopore Sequencing
Sample and library prep theory
QC DNA/RNA samples

Flex Labs A & B
Training Lab B
16:30 - 18:00

Introduction to data analysis principles
Differential gene expression
Splice isoforms
Structural Variation

Flex Labs A & B
Training Lab B

18:00 - 19:00

Dinner

EMBL Canteen

Day 2 - Tuesday 15 January 2019
TimeSpeakerLocation
09:45 - 10:00

Introduction to lab set up and protocols
Barcoded cDNA with PCR
Native barcoding with LSK 109

Flex Labs A & B

10:00 - 11:00

Set up barcoded cDNA PCRs

Flex Labs A & B

11:00 - 11:15

Coffee break

Outside Training Lab Area

11:15 - 13:15

Prepare Native Barcoded LSK 109 libraries

Training Lab B

13:15 - 14:15

Lunch break

EMBL Canteen

14:15 - 14:45

Flow cell loading practice

Training Lab B

14:45  - 15:15

Load LSK109 libraries

Computer Training Lab

15:15 - 15:45

Introduction to MinKNOW and assessing a GridION/MinION run

Training Lab B
15:45 - 16:15

Coffee break

Outside Training Lab Area

16:15 - 16:30 Check AWS connectivity

Training Lab B

16:30 - 17:00 Introduction to the Linux command line and practice

Computer Training Lab

17:00 - 18:00 Tour of EMBL's GeneCore facility

GeneCore facility

18:00 - 19:00

Dinner

EMBL Canteen

Day 3 - Wednesday 16 January 2019
TimeSpeakerLocation
09:45 - 10:15 Review runs from Day 2

Flex Labs A & B

10:15 - 12:00

Finish PCR barcoded libraries

Training Lab B

12:00 - 12:15

Coffee break

Outside Training Lab Area

12:15 - 12:45

Load PCR barcoded libraries

Training Lab B

12:45 - 13:30

Lunch break

EMBL Canteen

13:30 - 14:30

Measuring transcriptional changes in SCraMbLEd yeast genomes with Nanopore-based RNA sequencing
Aaron Brooks - EMBL Heidelberg, Germany

Flex Labs A & B

14:30 - 15:15

Introduction to structural variation and analysis

Computer Training Lab
15:15 - 15:30

Coffee break

Outside Training Lab Area

15:30 - 17:00

Practice structural variation detection with example data

Computer Training Lab

from 17:00

Course Dinner

Restaurant in Downtown Heidelberg

Day 4 - Thursday 17 January 2019
TimeSpeakerLocation
09:45 - 10:15 Review runs from Day 3

Flex Labs A & B

10:15 - 12:15 Structural variation detection with data from Day 2

Training Lab B
Computer Training Lab

12:15 - 13:00

Lunch break

EMBL Canteen

13:00 - 14:00

Nanopore RNA-seq leverages large animal models for systems cardiology research
Christoph Dieterich - Heidelberg University Hospital, Germany

Flex Labs A & B

14:00 - 14:45

Introduction to differential gene expression analysis and alternative splicing

Training Lab B
Computer Training Lab
14:45 - 15:00

Coffee break

Outside Training Lab Area

15:00 - 17:00

Practice differential gene expression and splicing analysis with example data

Training Lab B
Computer Training Lab

from 17:00

Free evening

Day 5 - Friday 18 January 2019
TimeSpeakerLocation
09:45 - 12:15

Differential gene expression and splicing analysis with data from Day 3

Training Lab B
Computer Training Lab

12:15 - 13:00

Lunch break

EMBL Canteen

13:00 - 14:30

Group presentations with data analysis results

Flex Labs A & B

from 14:30

End of course