Stoichiometric and Kinetic Modelling of Biochemical Networks

October 6-10, 2014 in Larnaca, Cyprus
(download flyer)

Why you should attend this course

Modeling comprises a number of different tasks.  Depending on the biological context, preliminary knowledge, availability of experimental data and other aspects, different approaches may be relevant for each task. This course will address the task of setting-up the models, show how an appropriate modeling approach can be chosen and introduce suitable tools. We will work with the software tools COPASI and FAME as these are open access. Both of them have a graphical user interface which simplifies modeling for non-programmers. Therefore, students with different backgrounds are welcome!

Target group

Students and researchers (biologists, bioinformaticians, biochemists, bioengineers). No preliminary knowledge of modeling required.

Lecturers

Preliminary program

October 6, 2014
Introduction into modeling basics and success stories of combining experiments with different modelling approaches
David Fell, Egils Stalidzans

October 7, 2014
Deterministic and stochastic kinetic modeling with COPASI (www.copasi.org): lectures and computer practicals
Sven Sahle, Jürgen Pahle, Egils Stalidzans

October 8, 2014
Optimisation of kinetic models with COPASI: lectures and computer practicals
Sven Sahle, Jürgen Pahle, Egils Stalidzans

Social event in the afternoon

October 9, 2014
Technologies and approaches of stoichiometric modeling using FAME online tool http://f-a-m-e.org: lectures and computer practicals
David Fell, Brett Olivier, Egils Stalidzans

October 10, 2014
Computer practicals with COPASI: work in groups on particular modeling and optimisation tasks; presentations of group work
Sven Sahle, Jürgen Pahle, Brett Olivier, Egils Stalidzans, David Fell

Course concept

This modeling course aims to provide an intense training experience.  The small number of  20 students allows for strong interaction between students and lecturers. Computer practicals and group work will offer the possibility of looking deeper into different aspects of modeling and to practice newly gained knowledge right away. In the afternoon, participants will have ample time to explore sunny Cyprus. Sightseeing or relaxing at the beach are only a couple of possibilities Larnaca and its surroundings offer. To foster networking and exchange between the participants, joint meals as well as a social event are part of the program.

Daily course hours

9.00-10.30    Session 1
10.30-11.00  Coffee break
11.00-12.30  Session 2
12.30-13:30  Lunch
16.00-17.30  Session 3
17.30-18.00  Coffee break
18.00-19.30  Session 4
20.00            Dinner

Conditions

  • Course Fee: 100 EUR (including coffee breaks, lunches, dinners, social event)
  • Accomodation and transport to the hotel are not included in the course fee and have to be organized individually

Venue

Flamingo Beach Hotel, Piale Pasha Street 152 6028, Larnaca, Cyprus

Hotel rooms have not been pre-booked. If you would like to stay at the Flamingo hotel you need to book your hotel room yourself. If you quote ‘ERASysAPP Course’ during booking you will benefit from the following special rates per room and night (including breakfast):
- 45 EUR for a double room / single occupancy
- 55 EUR for two people in a double/twin room

Further lodgings close to the course venue:

Application

Course registration closed on May 29, 2014.  In the first week of June 2014  applicants will be informed whether or not they have been accepted on this course. 

Contact

  • For further information on the organization of this training event please contact Heide Hess, SystemsX.ch
  • For questions regarding the scientific program please contact Egils Stalidzans, Latvia University of Agriculture

This Systems Biology Training course is organized and sponsored by ERASysAPP.