Imperial College/Courses/Spring2008/Synthetic Biology/Computer Modelling Practicals

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Synthetic Biology (Spring2008): Computer Modelling Practicals

Home        CellDesigner Tutorial        Practical 1        Practical 2        Practical 3        Schedule        Back to Synthetic Biology Course       

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Spring 2008

Instructor: Vincent Rouilly.

Room: Biochemistry building, 310.



  • Vincent 08:43, 5 February 2008 (CST): Practical 2 has been rescheduled, and will run this thurs (7th Feb) from 9-12 in room 311 Biochem.
  • Johnsy 04:57, 31 January 2008 (CST): Practical 2 Postponed until further notice.
  • Vincent 11:08, 18 January 2008 (CST): First practical report due on Monday 21st January, before 5pm. You can submit by emailing to me (PDF or Word format).
  • Vincent 06:43, 18 January 2008 (CST): Practical-2 re-run planned on January 31st. Practical-2 report not due before February 7th, 5pm.
  • Vincent 04:06, 15 January 2008 (CST): Computer Lab, planned on Tuesday 15th Jan POSTPONED . Computer Lab on Thursday 17th Jan (9-12), CONFIRMED
  • Registration to OpenWetWare required (Join OWW)
  • You can find old announcements here

Computer Lab Overview

Practical 1: Introduction (3h)

  • Short Presentation: "All the models are wrong, but some of them are useful", George Box.
  • Short Presentation: CellDesigner Crash Course
    • Features and GUI
    • Kinetic Simulations
    • SBML
  • Hands-on: Build your first kinetic models.

Practical 2: Gene Expression Modelling (3h)

  • Constitutive Gene Expression
  • Activated and Repressed Gene Expression
  • Positive and Negative Feedback Gene Expression

Practical 3: Genetic Circuit Modelling (3h)

  • Genetic Inverter Characterisation
  • Repressilator Characterisation
  • Mystery Device Characterisation