Location & dates EMBL Heidelberg, Germany 3 - 7 Dec 2018
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

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Day 1 - Monday 3 December 2018
TimeSpeakerLocation
08:00 - 09:00

Arrival, Registration & Welcome

Flex Labs A & B

09:00 - 09:30

Course Introduction
Kiran Patil - EMBL Heidelberg, Germany

Flex Labs A & B

09:30 - 10:30

Inferring community composition and species interaction networks from metagenomic data
Georg Zeller - EMBL Heidelberg, Germany

Flex Labs A & B

10:30 - 11:00

Coffee break and Meet the Speakers

Flex Labs A & B

11:00 - 13:00

Computer Practical:
Inferring community composition and species interaction networks from metagenomic data
Alessio Milanese - EMBL Heidelberg, Germany
Georg Zeller - EMBL Heidlerberg, Germany

Computer Training Lab

13:00 - 14:00

Lunch break

EMBL Canteen

14:00 - 18:00

Experimental Practical:
Group I: Microbial Community Dynamics (barcoded amplicon sequencing)

Sonja Blasche - EMBL Heidelberg, Germany
Group II:  Microbial Interactions (GC-MS metabolomics)
Eleni Kafkia (data analysis) - EMBL Heidelberg, Germany
Dimitrios Konstantinidis - EMBL Heidelberg, Germany

Training Lab B

18:00 - 20:30

Flash Talk Session and Pizza night

ATC Rooftop Lounge
Day 2 - Tuesday 4 December 2018
TimeSpeakerLocation
09:00 - 10:15

Analysis of the human gut microbiome and beyond
Peer Bork - EMBL Heidlerberg, Germany

Flex Labs A & B

10:15 - 10:45

Coffee break and Meet the Speaker

Flex Labs A & B

10:45 - 11:45 Kinetic population models and high-throughput measurements of microbial interactions
Tobias Bollenbach - University of Cologne, Germany

Flex Labs A & B

11:45 - 12:15 Coffee break and Meet the Speaker

Flex Labs A & B

12:15 - 13:00 Computer Practical:
Kinetic population models and high-throughput measurements of microbial interactions
Gerrit Ansmann - University of Cologne, Germany
Tobias Bollenbach - University of Cologne, Germany

Computer Training Lab

13:00 - 14:00

Lunch break

EMBL Canteen

14:00 - 16:15

Computer Practical:
Kinetic population models and high-throughput measurements of microbial interactions
Gerrit Ansmann - University of Cologne, Germany
Tobias Bollenbach - University of Cologne, Germany

Computer Training Lab

16:15 - 16:30

Coffee break

Flex Labs A & B

16:30 - 18:45

Experimental Practical:
Group I: Microbial Community Dynamics (barcoded amplicon sequencing)

Sonja Blasche - EMBL Heidelberg, Germany
Group II:  Microbial Interactions (GC-MS metabolomics)
Eleni Kafkia (data analysis) - EMBL Heidelberg, Germany
Dimitrios Konstantinidis - EMBL Heidelberg, Germany

Training Lab B

18:45 - 19:45

Dinner

EMBL Canteen

Day 3 - Wednesday 5 December 2018
TimeSpeakerLocation
09:00 - 10:00

Introduction to genome-scale metabolic models and FBA
Paula Jouhten - VTT Technical Research Centre of Finland, Finland

Flex Labs A & B

10:00 - 10:30

Coffee break and Meet the Speaker

Flex Labs A & B

10:30 - 11:30

Mapping metabolic interactions in large communities
Kiran Patil - EMBL Heidelberg, Germany

Flex Labs A & B

11:30 - 12:00

Coffee break and Meet the Speaker

Flex Labs A & B

12:00 - 13:00

Computer Practical:
Genome scale metabolic models for single species and microbial communities
Paula Jouhten - VTT Technical Research Centre of Finland, Finland
Daniel Machado - EMBL Heidelberg, Germany
Kiran Patil - EMBL Heidelberg, Germany

Computer Training Lab
13:00 - 14:00

Lunch break

EMBL Canteen

14:00

Group photo

Flex Labs A & B

14:00 - 16:15

Computer Practical:
Genome scale metabolic models for single species and microbial communities
Paula Jouhten - VTT Technical Research Centre of Finland, Finland
Daniel Machado - EMBL Heidelberg, Germany
Kiran Patil - EMBL Heidelberg, Germany

Computer Training Lab

16:15 - 16:30

Coffee break

Flex Labs A & B

16:30 - 18:45

Experimental Practical:
Group I:  Microbial Interactions (GC-MS metabolomics)
Eleni Kafkia (data analysis) - EMBL Heidelberg, Germany
Dimitrios Konstantinidis - EMBL Heidelberg, Germany
Group II: Microbial Community Dynamics (barcoded amplicon sequencing)
Sonja Blasche - EMBL Heidelberg, Germany

Training Lab B

from 18:45

Course Dinner

Restaurant in downtown Heidelberg

Day 4 - Thursday 6 December 2018
TimeSpeakerLocation
09:00 - 10:00 Spatio-Temporal Genome-Scale Modeling of Microbial Communities
Ilija Dukovski - Boston University, USA

Flex Labs A & B

10:00 - 10:30

Coffee break and Meet the Speaker

Flex Labs A & B

10:30 - 12:30 Computer Practical:
Spatio-Temporal Genome-Scale Modeling of Microbial Communities
Ilija Dukovski - Boston University, USA

Computer Training Lab

12:30 - 13:30

Lunch break

EMBL Canteen

13:30 - 14:30 Computer Practical:
Spatio-Temporal Genome-Scale Modeling of Microbial Communities
Ilija Dukovski - Boston University, USA

Computer Training Lab

14:30 - 14:45

Coffee break

Flex Labs A & B

14:45 - 18:45

Experimental Practical:
Group I:  Microbial Interactions (GC-MS metabolomics)
Eleni Kafkia (data analysis) - EMBL Heidelberg, Germany
Dimitrios Konstantinidis - EMBL Heidelberg, Germany
Group II: Microbial Community Dynamics (barcoded amplicon sequencing)
Sonja Blasche - EMBL Heidelberg, Germany

Training Lab B

18:45 - 19:45

Dinner

EMBL Canteen

Day 5 - Friday 7 December 2018
TimeSpeakerLocation
09:00 - 10:00

Genome-based Modeling of Microbial Communities Relevant to Bioremediation
Radhakrishnan Mahadevan, University of Toronto, Canada

Flex Labs A & B

10:00 - 10:30 Coffee break and Meet the Speaker

Flex Labs A & B

10:30 - 12:30

Computer Practical:
Dynamic Community Modeling using Dynamic Flux Balance Analysis

Olivia Bulka - University of Toronto, Canada
Ruhi Choudhary - University of Toronto, Canada
Radhakrishnan Mahadevan - University of Toronto, Canada

Computer Training Lab

12:30 - 13:30

Lunch break

EMBL Canteen

13:30 - 14:30

Computer Practical:
Dynamic Community Modeling using Dynamic Flux Balance Analysis

Olivia Bulka - University of Toronto, Canada
Ruhi Choudhary - University of Toronto, Canada
Radhakrishnan Mahadevan - University of Toronto, Canada

Computer Training Lab

14:30 - 14:45

Coffee break

Flex Labs A & B

14:45 - 16:45 Analysis of experimental data and presentation

Flex Labs A & B