Location & dates EMBL Heidelberg, Germany 2 - 7 Feb 2020
Deadlines Application closed

Programme

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Day 1 - Sunday 2 February 2020
TimeSpeakerLocation
08:45

Bus from ISG Hotel to EMBL ATC entrance

ISG Hotel bus stop

09:00 - 09:30

Arrival & Welcome

Courtyard Room

09:30 - 10:30

Lecture: RNA-seq: Is it that Simple?
Vladimir Benes - EMBL Heidelberg, Germany

Courtyard Room

10:30 - 11:00

Coffee break

Courtyard Room

11:00 - 12:30 

Lecture: RNA-seq: Is it that Simple?
Vladimir Benes - EMBL Heidelberg, Germany

Courtyard Room

12:30 - 13:30

Lunch

13:30 - 15:30

Lecture: RNA-seq: From Reads to Genes
-Reference based and alignment-free transcripts counting
-Duplication artifacts effects on expression estimation
-Annotation effect on expression estimation
Raffaele Calogero - University of Torino, Italy

Computer Training Lab
15:30 - 16:00

Coffee break

Computer Training Lab
16:00 - 18:00

Practical: From Reads to Genes
Raffaele Calogero - University of Torino, Italy

Computer Training Lab

18:10 Shuttle to the Hotel

ATC entrance

18:30

Dinner

ISG Hotel

Day 2 - Monday 3 February 2020
TimeSpeakerLocation
08:15

Bus from ISG Hotel to EMBL ATC entrance

ISG Hotel bus stop

08:30 – 10:00

Lecture: Differential expression analysis: Two groups and multiple groups comparisons using DEseq2 and edgeR anova-like tools
Raffaele Calogero - University of Torino, Italy

Computer Training Lab

10:00 – 10:30

Coffee break

Computer Training Lab

10:30 - 12:30

Practical: Differential expression analysis: Two groups and multiple groups comparisons using DEseq2 and edgeR anova-like tools
Raffaele Calogero - University of Torino, Italy

Computer Training Lab

12:30 - 13:30 Lunch

EMBL Canteen

13:30 - 15:00

Lecture: P-values and multiple testing correction
Hyungwon Choi - National University of Singapore, Singapore

Computer Training Lab

15:00 - 15:30 Coffee break

Computer Training Lab

15:30 - 18:00

Lecture: Ribosome profiling
Gerben Menschaert - University of Ghent, Belgium

Computer Training Lab

18:00 - 19:00

Dinner

EMBL Canteen

19:00

Shuttle to the Hotel

ATC entrance

Day 3 - Tuesday 4 February 2020
TimeSpeakerLocation
08:45

Bus from ISG Hotel to EMBL ATC entrance

ISG Hotel bus stop

09:00 - 10:30

Lecture: Ribosome profiling
Gerben Menschaert - University of Ghent, Belgium

Computer Training Lab

10:30 - 12:00

Lecture: Introduction to Proteomics
Jeroen Krijgsveld - DKFZ, Germany

Computer Training Lab

12:00 - 13:00

Lunch

EMBL Canteen

13:00 - 14:30

Lecture: Quantitative proteomics: SILAC and other MS1-based approaches
Jeroen Krijgsveld - DKFZ, Germany

Computer Training Lab

14:30 - 15:00

Coffee Break

Computer Training Lab

15:00 - 16:30

Lecture: Quantitative proteomics: TMT
Mikhail Savitski - EMBL Heidelberg, Germany

Computer Training Lab

16:30 - 18:00

Lecture: Bioinformatics for proteomics
Lennart Martens - University of Ghent, Belgium

Computer Training Lab

18:00 - 19:00

Dinner

EMBL Canteen

19:00

Shuttle to the Hotel

ATC entrance

Day 4 - Wednesday 5 February 2020
TimeSpeakerLocation
08:45

Bus from ISG Hotel to EMBL ATC entrance

ISG Hotel bus stop

09:00 - 10:30

Lecture: Bioinformatics for proteomics
Lennart Martens - University of Ghent, Belgium

Computer Training Lab

10:30 - 11:00 Coffee Break

Computer Training Lab

11:00 - 12:30

Practical Session: Turning data into information-peptide and protein identification, database searching
Lennart Martens - University of Ghent, Belgium

Computer Training Lab

12:30 - 13:30

Lunch

EMBL Canteen

13:30 - 15:00

Lecture: Introduction to MaxQuant; analysis of MS data
Daria Fijalkowska - University of Ghent, Belgium

Computer Training Lab

15:00 - 15:30

Coffee Break

Computer Training Lab
15:30 - 17:30 Practical Session: Proteomics data interpretation
Daria Fijalkowska - DKFZ, Germany

Computer Training Lab

17:30 - 18:00

Shuttle to ISG Hotel

ATC entrance

18:00 - 18:30

Shuttle downtown

ISG Hotel bus stop

19:00

Dinner Downtown

Day 5 - Thursday 6 February 2020
TimeSpeakerLocation
08:45

Bus from ISG Hotel to EMBL ATC entrance

ISG Hotel bus stop

09:00 - 10:30

Lecture: Bioinformatic tools for data comparison and integration
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

10:30 - 11:00

Coffee Break

Computer Training Lab

11:00 - 12:00

Practical: Introduction to Cytoscape
Manjeet Kumar - EMBL Heidelberg, Germany
Livia Perfetto - EMBL-EBI Hinxton, UK
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

12:00 - 13:00

Lunch

EMBL Canteen

13:00 - 14:30

Practical: Introduction to Cytoscape
Manjeet Kumar - EMBL Heidelberg, Germany
Livia Perfetto - EMBL-EBI Hinxton, UK
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

14:30 - 15:00

Coffee Break

Computer Training Lab

15:00 - 16:30

Practical: Introduction to Cytoscape
Manjeet Kumar - EMBL Heidelberg, Germany
Livia Perfetto - EMBL-EBI Hinxton, UK
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

16:30 - 17:30

Lecture and Practical: Enrichment analysis
Manjeet Kumar - EMBL Heidelberg, Germany
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

17:30

Shuttle to ISG Hotel

ATC entrance

17:30 - 18:00

Shuttle downtown

ISG Hotel bus stop

18:00
Free evening

Day 6 - Friday 7 February 2020
TimeSpeakerLocation
08:45

Bus from ISG Hotel to EMBL ATC entrance

ISG Hotel bus stop

09:00 - 10:00

Application talk: Network-oriented integrative multi-omics analysis of tissues and fluids - case studies in cancer and cardiovascular diseases
Hyungwon Choi - National University of Singapore, Singapore

Computer Training Lab

10:00 - 16:00

Practical Session: Data integration
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

12:30 - 13:30

Lunch

EMBL Canteen

13:30 - 16:00

Practical Session: Data integration
Matt Rogon - EMBL Heidelberg, Germany

Computer Training Lab

16:00

Shuttle to Train Station and Crown Plaza Hotel

ATC entrance