BNFO 301 
Introduction to Bioinformatics
Questionnaire on Tour of Madsen et al (1999)
(please press SUBMIT button when finished)
(and please don't use quotation marks in your answers. They break the questionnaire program!)
Spring 2011 

I. Basic Information

A. Your name 
II. Lifestyles of bacteriophage and regulation
  1. Do you understand how CI and Cro proteins and specific DNA sequences lay at the basis of a molecular machine to dirct lambda towards either the lysogenic or lytic pathways?
  2. Any other issues concerning bacteriophage and regulation that warrent discussion?
     
III. Madsen et al (1999)
  1. Did you have any trouble obtaining the article?
  2. Do you have an idea how to assess whether an article might be useful in answering your specific question?
  3. Do you feel comfortable in interpretting Figure 1?
  4. Do you understand the significance of beta-galactosidase activity measurements?
  5. Do you feel comfortable in interpretting Figure 3?
  6. Do you understand the principle behind primer extension experiments?
  7. Were you able to find the sequence between ORF4 and ORF5 in the genome sequence of TP901-1?
  8. Are you able to argue persuasively based on experimental data and your own observations whether ORF4 is or is not a general repressor of lytic function?
  9. Anything other issues related to the article?
     

Do you have any favorite study questions you think need discussion?  

IV. Problem Set III (Genome Sequencing)
  1. Are you comfortable completing Problem 2 of this problem set?
  2. Any other issues arising from going through this problem set?
     
V. Miscellaneous

A. [SECOND CHANCE!] (no need to respond to this question if you have alreay done so)
There will be a talk/discussion Friday, February 25, some time between 9AM and 11AM, by David Harper, Chief Scientific Officer of BioControl a subsidiary of Targeted Genetics. He is the founder of his company, which has the goal of targeting bacteriophage to human pathogens. You can read a bit more here about BioControl's approach and Sulakvelidze et al (2001) for a general account of phage therapy.

  1. Would you be interested and able to attend?
  2. Do you have a preference as to the format and nature of the encounter? He is willing to give a conventional talk or lead a more informal discussion of biotechnology and your possible roles in it.
     

B. Any miscellaneous comments, questions, suggestions, concerns?
     

Thanks!

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