I. Basic Information

A. Your name 

A. How comfortable are you with the basic principles behind constructing PSSMs? For example, could you have made Table 1B (Table of occurrences) yourself?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

B. How comfortable are you about going from a table of occurences to a frequency table? For example, could you have made Table 1C yourself?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

C. How comfortable are you about using a PSSM to score a sequence? For example, could you have determined the values in the line marked "Score" of Table 2? (Never mind pseudocounts for the moment)  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

Comments for questions II.A through II.C:

A. How comfortable are you with the notion of pseudocounts in the calculation of PSSMs? Could you do such a calculation yourself?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

B. How comfortable are you with the notion of normalization with respect to overall nucleotide frequencies? Could you do such a calculation yourself?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

C. How comfortable are you with the meaning and calculation of uncertainty and information content?  Select Very comfortable Moderately comfortable Somewhat comfortable Not comfortable

Comments for questions III.A through III.C:

A. Please choose up to four study questions from the notes that you would most like discussed in class:

SQ1  SQ2  SQ3  SQ4  SQ5  SQ6  SQ7  SQ8  SQ9  SQ10 

B. Put here any miscellaneous comments, questions, suggestions, concerns you may have.

 

Thanks!

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