We have decided to prepare a course on 'Introduction on Synthetic Biology'.
(if you want to learn about more courses around the world go here)
The aim of this course is diverse.
- First, is a way to organize the series of talks and lectures that we think should be taken by a given iGEM participant.
- Second, is a way to gather educational material focused on people that want to have a broader perspective of Synthetic Biology.
- Third, is a perfect starting point to whoever wants to take a step on this field.
The syllabus of this course is divided in three parts. There is a group of topics that need to be known by biologists (or 'life science' people), then a bunch of topics that need to be known by engineers (or 'technical' people) and, finally, some lectures on 'what' is syntehtic biology and some examples of it.
Part 1 Training for biologists
Ordinary differential equations
- Introduction
- Basic concepts to understand an ODE
- Description and properties of ODE
- Solving ODE
- Vector spaces
- Dynamic systems
Control theory
- Introduction
- Types od controllers
- Block diagram
- Example of control
- Laplace transform and transfer function
- Frequency domain
- Examples
Electronics
- Introduction
- Boolean algebras
- Logical gates
- Representation of boolean functions
- Karnaugh maps
Error Theory
- Introduction to measurement theory
- Error theroy description
- Types of errors
- Evaluation of the error in an experimental measurement
- Minimal square fit
- Obtaining relations from experimental data
Programming in Matlab
- Introduction to programming languages
- Basic MatLab operations
- Programming in Matlab
- Solving ODE with Matlab
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Part 2 Training for engineers
Cell
- Cell, definition
- Basic elements
- Eukaryotes
- Prokaryotes
- Metabolism
Flow of genetic information
- Elements
- Nucelic acid – DNA and RNA
- Amino acid – proteins
- Central Dogma of Molecular Biology
- Dogma, revisited
- Horizontal transference
Genetic regulation
- DNA regulation
- RNA regulation
- Protein regulation
- Global regulatory mechanisms:
Communication with environment
- Signal transduction
- Signal
- Receptor
- Transducer
- Actuator
- Examples
Kinetic Chemistry
- Definitions
- Law of mass action
- Enzyme-catalyzed reactions
- Hill equation: allosterism
- Hill equation in gene modelling
(Basic) Laboratory Techniques (of molecular biology of bacteria)
- DNA cloning
- Polymerase Chain Reaction
- Gel electrophoresis
- Reading and writing DNA
- Molecular hybridization
- rewriting DNA: mutations
- arrays
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Part 3 Training in Synthetic Biology
Introduction to Synthetic Biology
- Introduction
- Synthetic Biology evolution
- Some examples
- Biology and Engineering. the paradigm of Synthetic biology
- Systems Biology work
- Synthetic gene regulatory systems
Standards
- Building a composable DNA library
- Registry
- Parts
- Signal carrier
- Modularity
- Looking for abstraction
- Abstraction hierarchy
Basic Synthetic Biology Circuits
Synthetic Biology works
- Toggle switch
- Repressilator
- Counting machine - ETH iGEM 2005
- Memory device - ETH iGEM 2007
- Cell free system - Imperial iGEM 2007
- Synthetic pattern formation
- Artifitial quorum sensing
- Artemisinin production
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