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Team:Colombia/The Project
From 2008.igem.org
Objective
The aim is to assemble different parts in order to develop a device for sensing different levels of iron in the environment and in blood. A computational modeling program is being developed to specifically predict the different levels and state of oxidation-reduction of iron.
E-Nose
As a major part of our project we want to create a computational model based on an array of broadly tuned chemical sensors, i.e. sensors that interact with a broad range of chemicals with varying strengths, or just one type of chemical but treating different concentrations of the same chemical as if they were different chemicals. Consequently, an incoming analyte stimulates many of the sensors in the array, and elicits a characteristic response pattern (Carmel et all, 2003).
We propose an algorithm for use with multisensor systems that is capable of:
a) Identifying an analyte, (iron) independently of its concentration
b) estimate the concentration of the analyte (iron), even if the system was not previously exposed to this concentration
c) tell when an analyte is of a chemical type not previously presented to the system.
The algorithm is based upon recent work of Hop eld, and uses the multiplicity of sensors explicitly, and is intuitive and easy to implement.
We want to test it against real data, and see if it exhibits high quality performance.
Experimental Data
The E-Nose will be based on, trained on (computational-modeling), and tested on data coming from lab experiments with single sensors which are part of the final multisensory system device.
The experimental data obtained from this are responses (outputs) to different concentrations of iron, state of oxidation-reduction of iron, different oxygen levels, different pH levels, and different experimental periods, and other intrinsic inputs of the devices or parts (i.e. sizes, types, etc) used in each experiment.
The outputs that will be measured are:
- Optical density
- pH
- ATP
- Voltage
- DNA
- Fluorescence
- CFU
Before any experiments, devices need to be transformed, to do so we will follow the next procedure:
1. We test the viability of the parts, if needed by PCR and gel analysis
2. We digest and ligate the parts into each expression vector according to each enzyme protocol and the Colombian iGEM publication,2007 (Quintero et al. 2007).
3. We transform the constructs into cells following the [http://partsregistry.org/Help:Spring_2008_DNA_distribution 2008 DNA kit distribution handbook protocol] and Colombian iGEM publication 2007 (Quintero et al, 2007)
References
L. Carmel, N. Sever, D. Lancet, D. Harel. 2003.An eNose algorithm for identifying chemicals and determining their concentration. Department of Computer Science and Applied Mathematics, The Weizmann Institute of Science, Rehovot 76100, Department of Molecular Genetics, The Weizmann Institute of Science, Rehovot 76100, Israel. Sensors and Actuators B 93 (2003) 77–83
Quinter,A., S.Garcia, C. Guevara, C.Ospina, P. Guevara, andR.Cuero. 2007. Microbial biosensor device foriron detection under UV irradiation. IET. Volume1 (1-2): 71-73
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