20.109(F12): M1 ppt summary and notes

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20.109(F12): Laboratory Fundamentals of Biological Engineering

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Schedule for Module 1 powerpoint summary and notes

Due: October 11th, 2012

  • This assignment is due by 11AM.
  • This assignment can be no more than 12 slides total.
  • Please turn in your summaries electronically by uploading them to the Stellar website that is associated with our class. It is important that you name your files according to this convention: LabSection_TeamColor_Mod1.ppt, for example: TR_TeamGold_Mod1.ppt
  • There will be a 1/3 letter grade penalty for each day (24 hour period) late. If you are submitting your assignment after the due date, it must be emailed to bevin, nkuldell, skalford and astachow AT mit DOT edu.

Guidelines for your submission

Your summary must include the following:

  • Title: a title page that includes you and your lab partner's name, your lab section and your team color.
  • Goals: 1/2 this slide should present a fully labelled and formatted figure to show a plasmid map of the clone you have been trying to create. This figure must include all the restriction sites introduced. This portion of your slide should also have a legend that is numbered and titled, that includes a sentence about what's shown, and that lists the sizes you would predict for the fragments generated by an EcoRV/XbaI double digest and a BamHI/XhoI double digest. On the second 1/2 of the slide, you should include a statement that describes the goals of this experimental module and also the lab techniques that this module introduces.
  • PCR: 1/2 this slide should present a fully labelled and formatted figure to show your pCX-NNX/PCR product agarose gel. This portion of your slide, which could have been drafted as part of the M1D3 assignment, should also include a legend that is numbered and titled, and that includes a sentence about what's shown. On the second 1/2 of this slide, you should include at least 5 bullet points that are relevant to the information shown and that demonstrate your understanding of the results and its relevance to the experiment overall.
  • Ligations and Transformations: 1/2 of this slide should present a table with the results of your ligations and transformations. This portion of your slide, which could have been drafted as part of the M1D5 assignment, should also have a legend that is numbered and titled, and that includes a brief explanation about what was done and what each sample is. On the second 1/2 of this slide, you should include at least 5 bullet points that are relevant to the information shown and that demonstrate your understanding of the technique and the results. One of these points should be a calculation of the transformation efficiency (# colonies/μg plasmid DNA) and, if you choose, its relevance to your data.
  • Diagnostic Agarose Gel: 1/2 this slide should present a fully labelled and formatted figure to show your diagnostic agarose gel. This portion of your slide should also have a legend that is numbered and titled, and that includes a brief explanation about what was done and what is shown in each lane. On the second 1/2 of this slide, you should include at least 3 bullet points that compare the expected results and the reality of what's seen.
  • Flow Cytometry: 1/2 this slide should present a fully labelled and formatted figure to show how flow cytometry works. You can re-use the figure from the wiki if you include a reference for it. This portion of your slide should also have a legend that is numbered and titled, and that explains how flow cytometry works. On the second 1/2 of this slide, you should include your expectations for each of the samples you tested by FACS and a brief justification for the expectation.
  • Raw FACS data: This entire slide can present a fully labelled and formatted figure to show your raw FACS data. This should include flow plots for negative control, positive control and one of your samples. You should use arrows to indicate key attributes. Your figure should have a legend that is numbered and titled, and that includes a brief interpretation of each flow plot.
  • Class FACS data: This entire slide can present a fully labelled and formatted figure or table to show the class FACS data and its significance. You must include some statistical analysis of the data. Your figure should have a legend that is numbered and titled, and that includes a brief explanation of which samples you decided to analyze statistically, and what your findings indicate. You should clearly state if your statistical analysis used data from the T/R lab, or the W/F lab, or both. If there are data points that you've discarded, use the legend to say why.
  • Individual FACS data: 1/2 this slide should present a fully labelled and formatted figure or table to show your own FACS data set. This portion of your slide should also have a legend that is numbered and titled, and that explains what was done and what is shown. One the second 1/2 of this slide, you should include at least 3 bullet points that interpret your data and explain how it compares to what the class sees.
  • Conclusion: self-explanatory--go to town!

Your ppt summary and notes may include the following:

  • a review of the science on which the recombination assay is based
  • an overview of the recombination assay itself
  • an analysis of the merits/shortcomings of this assay vs others that are available or possible
  • an application space for this assay
  • your idea here
Good luck and have fun!
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