[BBC] BioSB Course: In silico life: constraint-based modelling at genome scale, May 9-11 2016, Amsterdam

[Celia.vanGelder at radboudumc.nl]

Dear colleague,


The BioSB course In silico life: constraint-based modelling at genome scale (first edition), is  open for registration.
Please spread this message to other researchers in your network that might be interested.


Date: May 9-11, 2016
Location: Amsterdam
Course Coordinators: Bas Teusink (VU), Brett Olivier (VU), Vrije Universiteit Amsterdam, Celia van Gelder (BioSB)
Speakers & tutors: Dr. Filipe Branco dos Santos (UVA), Prof. Frank Bruggeman (VU), Dr. Richard Notebaard (RUMC), Dr. Peter Schaap (WUR), Prof. Bas Teusink (VU), Dr. Katy Wolstencroft (LIACS), Dr. Ahmad Zeidan (Chr. Hansen), Dr. Zheng Zhao (DSM),  Jasper Koehorst (WUR), Dr. Brett Olivier (VU)
Website: http://biosb.nl/education/course-portfolio-2/course-constraint-based-modelling-course/
Registration: http://biosb.nl/education/course-portfolio-2/course-constraint-based-modelling-course/enrollment-constraint-based-modelling-course/
Target audience
Constraint-based modelling is a rapidly growing field that is being use in both fundamental and applied research and biotechnology. It sits at the intersection between quantitative metabolic modelling, bioinformatics and cellular physiology and, as such, is an example of systems biology at work.  While participants would benefit from some knowledge of either quantitative modelling, bioinformatics or microbial physiology this is not required. This includes, for example, scientists working in a laboratory and wanting to learn more about building or using genome-scale models, as well as, those who have used basic FBA, but want to know how else it can be applied to their research.

Course description
Constraint-based modelling is a powerful modelling methodology that is being used to model a diverse range of biological phenomena. These include both fundamental and applied questions relevant to biotechnology, microbiology and medicine. Central to constraint-based modelling is the use of a genome-scale reconstructions (GSR’s) that maps out the metabolism of a cell as a biochemical reaction network.
In this course you will be introduced to:

  *   techniques for the construction of a working GSR: tools, tricks and pitfalls
  *   the underlying mathematical definition and description of a constraint-based model
  *   methods for interrogating models and interpreting results, such as Flux Balance Analysis and Flux Variability Analysis
  *   software and standards

The preliminary course structure will be to divide each day into both lectures and practical sessions so that learned theory can immediately be applied in silico.
Full Course Programme


Monday (09/05/2016)

Tuesday  (10/05/2016)

Wednesday  (11/05/2016)



FALW, WN-F654

O2 Building  01W08

O2 Building  01W08

9:30 -11:00

Bas Teusink (VU)
b.teusink at vu.nl<mailto:b.teusink at vu.nl>

Frank Bruggeman (VU)
f.j.bruggeman at vu.nl<mailto:f.j.bruggeman at vu.nl>

Filipe Branco dos Santos (UVA)
f.brancodossantos at uva.nl<mailto:f.brancodossantos at uva.nl>

11:00 - 11:30

Coffee

Coffee

Coffee

11:30 - 12:45

Peter Schaap (WUR)
peter.schaap at wur.nl<mailto:peter.schaap at wur.nl>

Bas Teusink (VU)
b.teusink at vu.nl<mailto:b.teusink at vu.nl>

Richard Notebaard (RUMC)
Richard.Notebaart at radboudumc.nl<mailto:Richard.Notebaart at radboudumc.nl>

12:45 - 13:30

Lunch

Lunch

Lunch

13:30 - 14:30

Genome annotation
Jasper Koehorst (WUR)
jasperkoehorst at gmail.com<mailto:jasperkoehorst at gmail.com>

FAME
Brett Olivier
b.g.olivier at vu.nl<mailto:b.g.olivier at vu.nl>

SBML models, tools & databasesL
Brett Olivier (VU)
b.g.olivier at vu.nl<mailto:b.g.olivier at vu.nl>

14:30 - 15:30

FAIR data and models
Katy Wolstencroft (LU)
k.j.wolstencroft at liacs.leidenuniv.nl<mailto:k.j.wolstencroft at liacs.leidenuniv.nl>

15:30 - 16:00

Coffee

Coffee

Coffee

16:00 - 17:00

Zheng Zhao (DSM)
zheng.zhao at dsm.com<mailto:zheng.zhao at dsm.com>

Ahmad Zeidan (Chr Han)
DKAHZE at chr-hansen.com<mailto:DKAHZE at chr-hansen.com>

Final wrap-up & discussion

17:00 - 17:30

Wrap-up & discussion

Wrap-up & discussion



17:30 -

Drinks (BioSB)



Dinner (self organised)


BioSB Education Programme
The course is part of the Education Programme of BioSB, the Netherlands Bioinformatics and Systems Biology Research School, which offers training and education for in bioinformatics and systems biology. More information about BioSB can be found at www.biosb.nl<http://www.biosb.nl>.




Kind regards,

Celia van Gelder, BioSB
​
​
Dr. Celia W.G. van Gelder
Education Manager BioSB
Coordinator Education CMBI
Programme Manager Learning DTL/ELIXIR-NL
tel. +31613375327
e-mail: Celia.vanGelder at radboudumc.nl<mailto:Celia.vanGelder at radboudumc.nl>
websites: www.nbic.nl<http://www.nbic.nl/>,  www.biosb.nl, www.cmbi.ru.nl<http://www.cmbi.ru.nl/>, www.dtls.nl

Postal address:
CMBI 260
Radboud University Nijmegen-Medical Centre
PO Box 9101
6500 HB Nijmegen The Netherlands






Het Radboudumc staat geregistreerd bij de Kamer van Koophandel in het handelsregister onder nummer 41055629.
The Radboud university medical center is listed in the Commercial Register of the Chamber of Commerce under file number 41055629.
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