MESB19

Advanced Course on Metabolic Engineering and Systems Biology

25 - 29 August 2019

Welcome to the Advanced Course on Metabolic Engineering and Systems Biology!

This course is organized by the Systems and Synthetic Biology division at Chalmers University of Technology, and is intended for PhD students, postdocs and industrial researchers that are interested in computational aspects of metabolic engineering. The aim of the course is to provide participants with a strong primer of various (computational) aspects of metabolic engineering. The topics addressed range from constraint-based and kinetic modelling of metabolism, metabolic control analysis, synthetic biology tools and integrative omics data analysis. The course is intensive and will require pre-course studying of material that will be provided closer to the start date.

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General information

  • The course will run from the morning of Sunday August 25th until the end of the afternoon of Thursday August 29th.
  • Teaching during the course is through a combination of lectures and hands-on exercises.
  • Before the course, a detailed self-study plan will be distributed. It is important that the students study this material before the course to prepare themselves, as the lectures will be have a high pace and cover many different topics.
  • The maximum number of students is set at 40.
  • For the exercises, students should bring their own laptop, which should preferentially have MATLAB (license required) and R (freeware) installed.
  • All students are expected to present a poster. The advised maximum size is A0 portrait (width x height: 841 x 1189 mm). Posters have to be put up on Tuesday Wednesday morning before the lecture starts.
  • Upon request, an examination is available at the end of the course, while 5 ECTS are suggested for satisfactory completion.

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Critical dates

February 2019: Registration and abstract submission opens.

May 17th, 2019: Deadline for registration.

May 24th, 2019 Notice of admittance.

July 1st, 2019: Access to study materials, provided by email.

August 25th, 2019: Start of the course.

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Course fee

  • PhD students and postdocs: 2250 SEK*
  • Non-academic: 5500 SEK*

(*) excluding VAT

Included in this fee is:

  • Access to the study materials.
  • 5 day participation at MESB.
  • All lunches and coffee breaks.
  • Social dinner one of the evenings.

Note: Accommodation and travel are not included in the course fee, so plan your stay in advance (see more information below).

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Contact & registration

Please register by completing [this form]().

For any questions, please contact Eduard Kerkhoven or Verena Siewers.

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Schedule

Time Activity Room Lecturer
Sunday 25 August
8:30 Registration Outside KB
9:00 Course overview & intro to metabolic engineering KB JN
9:50 Break Outside KB
10:10 Introduction to metabolism, metabolic networks KB JN
11:50 Lunch Sysbio kitchen
13:10 Metabolic networks (cont’d) KB JN
14:00 Exercise: stoichiometry KB EJK
Monday 26 August
8:30 Genome-scale model reconstruction KB EJK
9:20 Linear programming & FBA KB AZ
10:10 Break Outside KB
10:30 Linear programming & FBA (cont’d) KB AZ
11:20 Genome-scale models in metabolic engineering KB EJK
12:10 Lunch Kårhuset
13:30-17:00 Exercise: genome-scale models 10:an EJK, HW, SM, CM, JB
15:15 Break 10:an
Tuesday 27 August
8:30 Synthetic biology tools KB FD
10:10 Break Outside KB
10:30 Fermentation technologies KB JLM
12:10 Lunch Outside KB
13:30 Metabolic control analysis 10:an EJK
15:15 Break 10:an
15:30 Exercise: metabolic control analysis 10:an EJK
17:55 Leave Chalmers for dinner
19:00 Dinner River restaurant
Wednesday 28 August
8:30 Research presentation KB JLM
9:20 Research presentation KB PJL
10:10 Break + posters Outside KB
10:30 Transcriptomics KB KC
12:10 Lunch + posters Outside KB
14:00 Proteomics KB PJL
15:45 Break + posters Outside KB
16:00-17:30 Differential expression analysis KB KC
Thursday 29 August
8:30 Integrative data analysis 10:an JR
10:10 Break 10:an
10:30 Exercise: differential expression analysis 10:an KC, JR, AL, FR, JH, RY
12:10 Lunch Hyllan
13:30-16:00 Exercise: integrative data analysis 10:an KC, JR, AL, FR, JH, RY
15:00 Break 10:an
16:00 Closing 10:an
16:00-17:00 Examination 10:an

Lecturers & volunteers:

AL
Angelo Limeta
JLM
José-Luis Martinez
AZ Aleksej Zelezniak JN Jens Nielsen
CM Carl Malina JR Jonathan Robinson
EJK Eduard Kerkhoven KC Kate Campbell
FD Florian David Linnea Österberg
FR Fariba Roshanzamir PJL Petri-Jaan Lahtvee
HW Hao Wang RY Rosemary Yu
JB Johan Björkeroth SM Simonas Marcišauskas
JH John Hellgren VS Verena Siewers

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Travel and accommodation

The course will take place at Chalmers University of Technology, Gothenburg, Sweden.

Arrival information

Arriving via Landvetter Airport
Taxis are located in front of the airport, with fixed prices for rides into different parts of the city. A taxi ride to Chalmers should cost approximately 450 SEK.

A more economical option is the airport bus (managed by Flygbussarna) that stops just outside the airport and takes you to Göteborg in about 20 minutes for 119/215 SEK for a single/return ticket (return is valid for 3 months, and tickets are cheaper to buy online). If asked, the bus driver can give you a free 90 min ticket that can be used for onward travel within Gothenburg with Västtrafik, the region’s public transport system. To make your way to Chalmers, get off the airport bus at Korsvägen, and take tram 6 (Länsmansgården), 8 (Frölunda) or 13 (Sahlgrenska) for a direct connection to Chalmers.

Note: You cannot pay with cash on the airport bus.

Arriving via Central Station
Gothenburg Central train station is located approximately 4 km away from Chalmers. Upon exiting the central station, keep walking straight to locate the tram and bus stop. Tram 13 (Sahlgrenska) and 7 (Tynnered) are direct connections to Chalmers.

The taxi service is located just outside the exit on the left hand side.

Getting around
The public transport in Gothenburg is run by Västtrafik, please refer to them for times and schedules.

You cannot pay with cash on public transport, while only trams have machines that accept credit cards!

Most convenient is to use the Västtrafik to go app (iOS/Android). You don’t need to make an account (this requires a Swedish personal number), but be aware that your phone should be connected to the internet as long as your ticket is valid, so this only works with non-Swedish phones if you accept dataroaming. A ticket costs 28 kr and is valid for 90 min on all Västtrafik busses and trams inside Gothenburg. Your 5th ticket in 7 days with the app is free!

Alternatively, you can get a contactless pay-as-you-go Västtrafikkort travel card. This card can be bought and recharged in many shops (Pressbyrån, 7-Eleven, etc.). The fee structure is the same as for the app: 28 kr for 90 min inside Gothenburg.

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Accommodation

We do not provide any pre-booked rooms, so plan your stay in advance. Make sure you book your accommodation well in advance, as rooms can be in short supply when university courses are close to starting. Here are a number of suggested hotels close to the venue:

Up to 325 kr/night
Slottsskogens Vandrarhem & Hotell - from 215 kr/night
Linnéplatsens Hotell & Vandrarhem - from 325 kr/night

Up to 1000 kr/night
City Hotel Avenyn - from 595 kr/night
Hotel Allen - from 695 kr/night
Hotel Bellora - from 695 kr/night
Quality Hotel Panorama - from 798 kr/night
Hotel Poseidon - from 995 kr/night

Over 1000 kr/night
Radisson Blu Scandinavia Hotel - from 1195 kr/night
Scandic Rubinen - from 1257 kr/night

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We are looking forward to welcome you to MESB19 in August!

MESB19 organizing committee:

  • Dr Eduard Kerkhoven
  • Dr Verena Siewers
  • Prof Jens Nielsen

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