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-modelli... Registration: http://biosb.nl/education/course-portfolio-2/course-constraint-based-modelli... 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@vu.nl<mailto:b.teusink@vu.nl> Frank Bruggeman (VU) f.j.bruggeman@vu.nl<mailto:f.j.bruggeman@vu.nl> Filipe Branco dos Santos (UVA) f.brancodossantos@uva.nl<mailto:f.brancodossantos@uva.nl> 11:00 - 11:30 Coffee Coffee Coffee 11:30 - 12:45 Peter Schaap (WUR) peter.schaap@wur.nl<mailto:peter.schaap@wur.nl> Bas Teusink (VU) b.teusink@vu.nl<mailto:b.teusink@vu.nl> Richard Notebaard (RUMC) Richard.Notebaart@radboudumc.nl<mailto:Richard.Notebaart@radboudumc.nl> 12:45 - 13:30 Lunch Lunch Lunch 13:30 - 14:30 Genome annotation Jasper Koehorst (WUR) jasperkoehorst@gmail.com<mailto:jasperkoehorst@gmail.com> FAME Brett Olivier b.g.olivier@vu.nl<mailto:b.g.olivier@vu.nl> SBML models, tools & databasesL Brett Olivier (VU) b.g.olivier@vu.nl<mailto:b.g.olivier@vu.nl> 14:30 - 15:30 FAIR data and models Katy Wolstencroft (LU) k.j.wolstencroft@liacs.leidenuniv.nl<mailto:k.j.wolstencroft@liacs.leidenuniv.nl> 15:30 - 16:00 Coffee Coffee Coffee 16:00 - 17:00 Zheng Zhao (DSM) zheng.zhao@dsm.com<mailto:zheng.zhao@dsm.com> Ahmad Zeidan (Chr Han) DKAHZE@chr-hansen.com<mailto:DKAHZE@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@radboudumc.nl<mailto:Celia.vanGelder@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.