Latest revision as of 19:52, 28 October 2011

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Microfluidics

Microfluidics Main | How-To Part I | How-To Part II | Tamagotchip

To characterise our transcription factors, we used a lot of microfluidics, a tool underused by the iGEM community. We were lucky to have experts at hand to help us get started, so in turn here is our effort to promote microfluidics within the iGEM community, and help future teams use it.

Microfluidics in Synthetic Biology

Microfluidics is a powerful tool for biological research, having a wide range of applications. Essentially any molecular biology technique can be adapted, including:

On-chip gene synthesis: protein expression from coding DNA
On-chip chemostat chambers: can be used to trace the fate of a single bacterium or to grow bacteria/yeast
Protein-protein interaction screening
Protein-DNA/RNA interactions: to determine the binding affinity of a transcription factor or to discover new regulatory proteins

A single picture gives us the binding affinity of 756 protein-DNA pairs

These techniques all share the same advantages when ported on-chip: reagent volumes are reduced, therefore minimising cost, and the tiny size of each reaction chamber allows massive parallelisation of the experiment, enabling high-throughput screening. More specifically, in vitro gene synthesis becomes affordable at this scale. Our MITOMI chip contains 768 wells, all visible in one frame, which allowed us to quantify the affinity of hundreds of protein-DNA combinations in a single experiment. The small channels also allow fine control over reaction conditions. Most soluble reagents can be used, including DNA, proteins, molecule libraries, and so on - allowing much creativity in experimental design.

Few iGEM teams used this technology for their projects. We believe that promoting the use of microfluidics can help iGEM and improve the Parts Registry, specifically by providing more thorough biobrick part characterisation. To this end, we wrote a guide to get started with microfluidics, focusing on how to build a setup and outlining chip fabrication. To tickle the community's interest, we also created a live online microfluidics game, where iGEMers can control a chip located in our lab from their web browser.

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-{{:Team:EPF-Lausanne/Templates/Header|title=Microfluidics}}
+{{:Team:EPF-Lausanne/Templates/MicrofluidicsHeader|title=Microfluidics}}
-To characterise our transcription factors, we used a lot of microfluidics, a tool underused by the iGEM community. We were lucky to have experts under hand to help us get started, so in turn here is our effort to promote microfluidics within the iGEM community, and help future teams to use it.
+To characterise our transcription factors, we used a lot of microfluidics, a tool underused by the iGEM community. We were lucky to have experts at hand to help us get started, so in turn here is our effort to promote microfluidics within the iGEM community, and help future teams use it.
-Skip straight to:
+== Microfluidics in Synthetic Biology ==
-* [[Team:EPF-Lausanne/Tools/Microfluidics/HowTo|The microfluidics how-to]]: Build your own setup.
+Microfluidics is a powerful tool for biological research, having a wide range of applications. Essentially any molecular biology technique can be adapted, including:
-* '''Tamagotchip:''' A microfluidics game to promote microfluidics to the iGEM community.
+* On-chip gene synthesis: protein expression from coding DNA
-* '''Muigi the Microplumber''': A software framework to control microfluidics.
+* On-chip chemostat chambers: can be used to trace the fate of a single bacterium or to grow bacteria/yeast
+* Protein-protein interaction screening
+* Protein-DNA/RNA interactions: to determine the binding affinity of a transcription factor or to discover new regulatory proteins
+[[File:EPFL-MITOMI shot.png|250px|right|thumb|A single picture gives us the binding affinity of 756 protein-DNA pairs]]
+These techniques all share the same advantages when ported on-chip: reagent volumes are reduced, therefore minimising cost, and the tiny size of each reaction chamber allows massive parallelisation of the experiment, enabling high-throughput screening. More specifically, ''in vitro'' gene synthesis becomes affordable at this scale. Our MITOMI chip contains 768 wells, all visible in one frame, which allowed us to quantify the affinity of hundreds of protein-DNA combinations in a single experiment. The small channels also allow fine control over reaction conditions. Most soluble reagents can be used, including DNA, proteins, molecule libraries, and so on - allowing much creativity in experimental design.
+Few iGEM teams used this technology for their projects. We believe that promoting the use of microfluidics can help iGEM and improve the Parts Registry, specifically by providing more thorough biobrick part characterisation. To this end, we wrote a guide to get started with microfluidics, focusing on how to [[Team:EPF-Lausanne/Tools/Microfluidics/HowTo2|build a setup]] and outlining [[Team:EPF-Lausanne/Tools/Microfluidics/HowTo1|chip fabrication]]. To tickle the community's interest, we also created a [[Team:EPF-Lausanne/Tools/Microfluidics/Tamagotchip|live online microfluidics game]], where iGEMers can control a chip located in our lab from their web browser.
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