Difference between revisions of "Optical Microscopy: Part 3 Report Outline"

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<ol start="5">
 
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</li>  <li>Disrupting and imaging the actin network
 
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    <ol>
 
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      <li>Procedure
 
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        <ul><li>Document sample preparation, including difficulties, and recording conditions (particularly exposure time and gain selected in the camera settings)</li></ul>
 
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      </li>
 
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      <li>Data</li>
 
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        <ul>
 
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          <li>Include images of mouse embryonic fibroblasts + and - CytoD.</li>
 
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        </ul>
 
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      <li>Analysis and Results</li>
 
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        <ul>
 
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          <li>What contrast do you unveil between the + and - CytoD conditions?</li>
 
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        </ul>
 
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      <li>Discussion</li>
 
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        <ul>
 
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          <li>Can you quantify the morphological and physiological effect of CytoD treatment?  What parameters would you choose to measure and report?</li>
 
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        </ul>
 
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    </ol>
 
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  </li>
 
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  </li> 
 
  
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<ol start="6">
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   </li>  <li>Resolution
 
   </li>  <li>Resolution
 
     <ol>
 
     <ol>
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       <li>Data</li>
 
       <li>Data</li>
 
         <ul>
 
         <ul>
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           <li>Include an image of the PSF sample with the beads used for resolution measurement indicated.</li>
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           <li>Include an image of the PSF sample indicating which beads were used for resolution measurement..</li>
 
         </ul>
 
         </ul>
 
       <li>Analysis and Results</li>
 
       <li>Analysis and Results</li>
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         <ul>
 
         <ul>
 
           <li>Compare the measured value to the theoretical value.</li>
 
           <li>Compare the measured value to the theoretical value.</li>
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           <li>Include a thorough discussion of error sources.</li>
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           <li>Include a thorough discussion of error sources. Do not comment on insignificant sources of error. To determine which error sources are significant, and which are not, you must think carefully about the uncertainty related to each error source and estimate its magnitude and sign. Include these estimates in your report along with your estimate of the combined, total uncertainty. It may be helpful to list out the error sources in a table, including a category for the error source, type of error (random, systematic, fundamental, technical, etc.), the magnitude of the error, and a description and way to minimize each one.</li>
 
         </ul>
 
         </ul>
 
     </ol>
 
     </ol>
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         <ul>
 
         <ul>
 
           <li>Show an example frame from the stability movie.</li>
 
           <li>Show an example frame from the stability movie.</li>
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           <li>Provide X-Y plots of difference tracks for pairs of fixed particles.</li>
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           <li>Plot two or more example bead trajectories for each of the samples. (Hint: If you subtract the initial position from each trajectory, then you can plot multiple trajectories on a single set of axes.)
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          <li>Plot MSD versus time interval &tau; for sum and difference tracks. Use a linear or logarithmic vertical axis so as to most clearly illustrate the relationship between the two datasets.
+
 
         </ul>
 
         </ul>
 
       <li>Analysis and Results</li>
 
       <li>Analysis and Results</li>
 
         <ul>
 
         <ul>
 +
          <li>Plot MSD versus time interval &tau; for individual and difference tracks using log-log axes.</li>
 
           <li>Provide a bullet point outline of data analysis methodology.</li>
 
           <li>Provide a bullet point outline of data analysis methodology.</li>
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          <li>Include a thorough discussion of error sources.</li>
 
 
         </ul>
 
         </ul>
 
       <li>Discussion</li>
 
       <li>Discussion</li>
 
         <ul>
 
         <ul>
 
           <li>What are the benefits and drawbacks of differential tracking?</li>
 
           <li>What are the benefits and drawbacks of differential tracking?</li>
 +
          <li>Include a thorough discussion of error sources.</li>
 
         </ul>
 
         </ul>
 
     </ol>
 
     </ol>
 
   </li>
 
   </li>
 
</ol>
 
</ol>

Latest revision as of 19:04, 7 March 2016

  1. Resolution
    1. Procedure
      • Document the samples you used and how you captured images (camera settings, software used, etc…)
    2. Data
      • Include an image of the PSF sample indicating which beads were used for resolution measurement..
    3. Analysis and Results
      • Report the resolution you measured. Make sure to include N and a measure of uncertainty.
      • Show sample Gaussian fits.
      • Explain the Matlab algorithm used for data analysis.
    4. Discussion
      • Compare the measured value to the theoretical value.
      • Include a thorough discussion of error sources. Do not comment on insignificant sources of error. To determine which error sources are significant, and which are not, you must think carefully about the uncertainty related to each error source and estimate its magnitude and sign. Include these estimates in your report along with your estimate of the combined, total uncertainty. It may be helpful to list out the error sources in a table, including a category for the error source, type of error (random, systematic, fundamental, technical, etc.), the magnitude of the error, and a description and way to minimize each one.
  2. Stability
    1. Procedure
      • Document the samples you used and how you captured images (camera settings, frame rate, total number of frames, exposure, software used, etc…)
    2. Data
      • Show an example frame from the stability movie.
      • Plot two or more example bead trajectories for each of the samples. (Hint: If you subtract the initial position from each trajectory, then you can plot multiple trajectories on a single set of axes.)
    3. Analysis and Results
      • Plot MSD versus time interval τ for individual and difference tracks using log-log axes.
      • Provide a bullet point outline of data analysis methodology.
    4. Discussion
      • What are the benefits and drawbacks of differential tracking?
      • Include a thorough discussion of error sources.
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