# Difference between revisions of "Spring 2020 Assignment 9"

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==The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae== | ==The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae== | ||

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Read [https://www.dropbox.com/s/cmgq0b33vn8csow/Frequency%20Dependence%20of%20Osmo-Adaptation%20in%20Saccharomyces%20cerevisiae.pdf?dl=0 The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae] and the [https://www.dropbox.com/s/y9k4qfzg8uld656/The%20Frequency%20Dependence%20of%20Osmo-Adaptation%20in%20Saccharomyces%20cerevisiae%20supporting.pdf?dl=0 supporting information.]. '''This paper will be the focus of exam 2.''' We will discuss the paper and the supporting information on Thursday and Friday. | Read [https://www.dropbox.com/s/cmgq0b33vn8csow/Frequency%20Dependence%20of%20Osmo-Adaptation%20in%20Saccharomyces%20cerevisiae.pdf?dl=0 The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae] and the [https://www.dropbox.com/s/y9k4qfzg8uld656/The%20Frequency%20Dependence%20of%20Osmo-Adaptation%20in%20Saccharomyces%20cerevisiae%20supporting.pdf?dl=0 supporting information.]. '''This paper will be the focus of exam 2.''' We will discuss the paper and the supporting information on Thursday and Friday. | ||

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Answer the following questions about The Frequency Dependence of Osmo-Adaptation in S. cerevisiae: | Answer the following questions about The Frequency Dependence of Osmo-Adaptation in S. cerevisiae: | ||

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<center>[[file:Mettetal yeast model step response.png|300 px]]</center> | <center>[[file:Mettetal yeast model step response.png|300 px]]</center> | ||

+ | <center>[[file:Mettetal yeast model Bode plots.png|300 px]]</center> | ||

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## Revision as of 20:24, 26 April 2020

## Signals and systems

System function | $ \frac{1}{s+1} $ | $ \frac{s}{s+1} $ | $ \frac{s}{s^2+2s+1} $ | $ \frac{s}{s^2+0.1s+1} $ | $ \frac{1}{s^2+10s+1} $ |
---|---|---|---|---|---|

Magnitude plot | |||||

Phase plot | |||||

Step response | |||||

Pole/zero plot | |||||

Description |

**Magnitude Plots**

**Phase Plots**

**Step Response Plots**

**Pole Zero Plots**

## Feedback systems

## The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae

Read The Frequency Dependence of Osmo-Adaptation in Saccharomyces cerevisiae and the supporting information.. Answer the following questions about The Frequency Dependence of Osmo-Adaptation in S. cerevisiae: - What is the primary mechanism by which S. cerevisiae recovers from hyperosmotic shock?
- What mathematical model did Mettetal,
*et. al.*use for Hog1 activation in response to a hyperosmotic shock? Express the model in the following forms: transfer function (TF), poles and zeros (ZPK), single differential equation (SDE), and coupled differential equations (CDE). Express the TF, SDE, and ZPK models in terms of the undamped natural frequency, $ \omega_0 $, damping ratio $ \zeta $, and/or damped natural frequency $ \omega_D $. - What model did Mettetal, et. al. use for
- Plot the frequency response (i.e. make a Bode plot) of the system over a range of $ \omega_0 $ and $ \zeta $ values that includes over damped, critically damped, and under damped.
- Find an expression for the step response and plot it over a range of values of $ \omega_0 $ and $ \zeta $. A hand-drawn plot is fine, but you should probably look into MATLAB's
`step`function. - Mettetal, et. al. found that that the hyperosmotic shock response of wild-type yeast was (choose one): underdamped, critically damped, or overdamped.
- The response of the mutant (low Pbs) yeast was (choose one): underdamped, critically damped, or overdamped.
- In the plot below, indicate which step response corresponds to the wild-type strain and the mutant strain.
- What are two questions that you have about the paper's methodology?
- Which of the pole zero diagrams below corresponds to the wild-type strain and the mutant strain.
- Which curve in the Bode plots below corresponds to the wild-type strain and the mutant strain.
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