IGEM:IMPERIAL/2008/New/Motility: Difference between revisions

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= Motility =
= Motility =
[[Image:Approach.jpg|300px|thumb|right|Approach to Modelling Motility]]
The motility of ''B.Subtilis'' is hypothesised to be affected by various levels of EpsE expression. In order to model motility as a function of EpsE production, we have decided to use video microscopy techniques to analyse the motility of ''B.Subtilis''. We hope to obtain a transfer function model relating EpsE expression to bacterial motility characteristics such as run velocity, run duration, tumbling angle and tumbling duration. This modelling process is shown on the right and has been divided into 3 main sections:
#'''[[IGEM:IMPERIAL/2008/Prototype/Drylab/Validation | Validation of Tracking Software ]]'''
#*In order to assess the error associated with tracking algorithms applied to a digitised images sequence, a series of steps were taken to '''[[IGEM:IMPERIAL/2008/Prototype/Drylab/Validation |validate]]''' the tracking software.
#'''[[IGEM:IMPERIAL/2008/Prototype/Drylab/Motility_data_collection|Motility Data Acquisition]]'''
#*Data on run velocity, run duration, tumbling angle and tubmling duration were extracted from coordinate data output provided by the tracking software as part of the process of gathering data.
#'''[[IGEM:IMPERIAL/2008/Prototype/Drylab/Data_Analysis|Model Fitting]]'''
#*Several alternative models were created for the purpose of model fitting. The motility data obtained is then analysed and fitted to alternative models. Preferences will then be assigned to fitted models using probabilistic methods such as Bayesian Analysis.


Authors: Clinton and Yanis
Authors: Clinton and Yanis

Revision as of 03:36, 8 September 2008

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<html><a href=http://openwetware.org/wiki/IGEM:IMPERIAL/2008/Prototype><img width=50px src=http://openwetware.org/images/f/f2/Imperial_2008_Logo.png></img</a></html> Home The Project B.subtilis Chassis Wet Lab Dry Lab Notebook

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Motility

Approach to Modelling Motility

The motility of B.Subtilis is hypothesised to be affected by various levels of EpsE expression. In order to model motility as a function of EpsE production, we have decided to use video microscopy techniques to analyse the motility of B.Subtilis. We hope to obtain a transfer function model relating EpsE expression to bacterial motility characteristics such as run velocity, run duration, tumbling angle and tumbling duration. This modelling process is shown on the right and has been divided into 3 main sections:

  1. Validation of Tracking Software
    • In order to assess the error associated with tracking algorithms applied to a digitised images sequence, a series of steps were taken to validate the tracking software.
  2. Motility Data Acquisition
    • Data on run velocity, run duration, tumbling angle and tubmling duration were extracted from coordinate data output provided by the tracking software as part of the process of gathering data.
  3. Model Fitting
    • Several alternative models were created for the purpose of model fitting. The motility data obtained is then analysed and fitted to alternative models. Preferences will then be assigned to fitted models using probabilistic methods such as Bayesian Analysis.


Authors: Clinton and Yanis

Editors: Erika

Why model motility - crucial to our project as it has has a motility function

Data gathering - link to wetlab

Synthetic data generation

Analysis

Results

Dry lab hub

Growth Curve

Genetic Circuit

Motility

Appendicies


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