Introduction to Bioinformatics (Fall 2002)
Questionnaire on notes: Regulatory Protein
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O. Comment
It seemed to me that a lot of good things were happening during the first problem set day, though it took a while to get started. People focusing on Perl problems had best results when they cast care to the wind and just tried things. What does "Rand" mean? The way to find out turned out to be just poking at it, putting in some numbers, erasing some lines, without caring what Perl might think.

The molecular problems were more fuzzy (you can't do immediate experiments like you can with computers). You might find yourself thinking at times, "I think this may be the answer... an answer. Maybe." At such fuzzy times, it might help to go back over the pertinent notes, looking for sections that might address the problem under consideration. Proceed with confidence that somewhere there exists an answer to each problem that feels satisfying (I can think of such answers to most of the problems).

I. Basic Information

A. Your name 
II. Problem Sets IntroM and IntroP
A. Did you know that you're invited to hand in your responses to problem sets in order to get feedback? (This invitation extends up to one week after the day the problem set was discussed in class) 
B. Did you know that exams will consist almost exclusively of questions derived from the problem sets and study questions? 
 
C. Please list up to four specific problems do you think it would be worthwhile to discuss in class with the whole group? 
III. Regulation of gene expression
A. Do you understand how regulation of gene expression may be achieved by exerting control at different points (e.g. initiation of transcription, degradation of protein, etc.)? 
B. Do you understand how mutation of specific nucleotides in the sequence upstream from a gene might affect the expression of that gene? 

C. Do you understand what is a palindromic DNA sequence? 
 
Comments for questions III.A through II.C:

IV. Scenario 1 and simulation
A. Do you understand the issue raised in Scenario 1 and how it leads to the problem posed? 

B. Can you list at least one reason why DiceRoll might not accurately predict the results of rolling a real set of dice? 

C. Can you list several reasons why simulating the genome of an organism might not work for some purpose? (Why did I add "for some purpose"?) 
 
Comments for questions IV.A through IV.C:

V. Design your class
A. Please choose up to four study questions that you would most like discussed in class:
SQ1 SQ2 SQ3 SQ4 SQ5 SQ6 SQ7SQ8 SQ9 SQ10 SQ11
B. Put here any miscellaneous comments, questions, suggestions, concerns you may have. E.g., Progress in Perl? Problem sets too confusing? Don't know where we're going?
 

Thanks!

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