Difference between revisions of "Assignment 8 Overview: flow channel & two-color microscope"

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==Overview==
 
==Overview==
  
In Assignments 6 and 7, you familiarized yourselves with the basic tools and measurement techniques used in electronics. In the remaining assignments this semester, we'll work towards measuring the frequency-dependent osmotic shock response of yeast cells. We'll build a few circuits, but more importantly, we'll apply the framework that we've learned - using transfer functions, feedback, and fourier transforms - to understand a biological system.  
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In Assignments 6 and 7, you familiarized yourselves with the basic tools and measurement techniques used in electronics. In the remaining assignments this semester, we'll work towards measuring the frequency-dependent osmotic shock response of yeast cells. We'll build a few circuits, but more importantly, we'll apply the framework that we've learned - using transfer functions, feedback, and Fourier transforms - to understanding a biological system.  
  
 
Our experiments are based on work published in ''Science'' by MIT researchers in 2008 <ref>[http://science.sciencemag.org/content/319/5862/482 | J. T. Mettetal, D. Muzzey, C. Gomez-Uribe, and A. van Oudenaarden, "The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae," Science, vol. 319, no. 5862, pp. 482–484, 2008]</ref>. The basic idea is that we will use a fluidic device to stimulate the yeast cells with high- or low-salt media, and measure the nuclear localization of the protein Hog1 using our fluorescence microscopes. We'll oscillate the flow of media from low to high salt at varying frequencies, and measure the amplitude and phase of Hog1's response.  
 
Our experiments are based on work published in ''Science'' by MIT researchers in 2008 <ref>[http://science.sciencemag.org/content/319/5862/482 | J. T. Mettetal, D. Muzzey, C. Gomez-Uribe, and A. van Oudenaarden, "The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae," Science, vol. 319, no. 5862, pp. 482–484, 2008]</ref>. The basic idea is that we will use a fluidic device to stimulate the yeast cells with high- or low-salt media, and measure the nuclear localization of the protein Hog1 using our fluorescence microscopes. We'll oscillate the flow of media from low to high salt at varying frequencies, and measure the amplitude and phase of Hog1's response.  

Revision as of 13:20, 2 November 2018

20.309: Biological Instrumentation and Measurement

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Overview

In Assignments 6 and 7, you familiarized yourselves with the basic tools and measurement techniques used in electronics. In the remaining assignments this semester, we'll work towards measuring the frequency-dependent osmotic shock response of yeast cells. We'll build a few circuits, but more importantly, we'll apply the framework that we've learned - using transfer functions, feedback, and Fourier transforms - to understanding a biological system.

Our experiments are based on work published in Science by MIT researchers in 2008 [1]. The basic idea is that we will use a fluidic device to stimulate the yeast cells with high- or low-salt media, and measure the nuclear localization of the protein Hog1 using our fluorescence microscopes. We'll oscillate the flow of media from low to high salt at varying frequencies, and measure the amplitude and phase of Hog1's response.

With this goal in mind, the focus of this week's assignment is to implement a few upgrades to our microscopes, and incorporate the fluidic device and control components. It is broken into three parts:

  1. Part 1: fabricate a microfluidic device;
  2. Part 2: implement 2-color imaging;
  3. Part 3: test your device with fluorescein.

WARNING: this assignment is heavy on the in-lab component. Make sure to start early to make sure you have enough time to get everything built!

Submit your work on Stellar in a single PDF file with the naming convention <Lastname><Firstname>Assignment8.pdf.

References

  1. | J. T. Mettetal, D. Muzzey, C. Gomez-Uribe, and A. van Oudenaarden, "The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae," Science, vol. 319, no. 5862, pp. 482–484, 2008

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