BIO/CSc 243
Bioinformatics

Schedule for Biology Students

Subject to Sudden Change

Dates Tuesday Thursday Readings
Jan 4, 6 What is bioinformatics?
Intro to some useful web sites:
Pubmed, Expasy, BLAST
What computers can
and cannot do;
The problem of search
Skim Chap 1 [Dum],
Chap 2 [Dum]
Jan 11, 13 Modular programming;
getting to know the
Python interpreter
variables and types
functions
Assign Project 1
Chaps 1-2 [Python]
Jan 18, 20 other people's functions
assignment, substrings
conditionals
Assign Project 2
Project 1 due
Chaps 3.6-3.9, 4.1-4.8 [Python]
Jan 25, 27 conditionals iteration
Assign Project 3
Project 2 due
Chaps 6.1-6.2, 7.1-7.9 [Python]
Feb 1, 3 iteration Midterm Chap 7 [Dum]
Feb 8, 10 How BLAST works
scoring matrices
Project 3 due
Assign Group Project 1
more on BLAST
FASTA and FASTX
Chap 9 [Dum]
Chap 8 [Python]
Feb 15, 17 Multiple Sequence Alignment
PCR and
making primers
ClustalW
how ClustalW works
similarity matrices
Chap 13 [Dum]
Feb 22, 24 phylogenetic trees
Group Project 1 due
Assign Final group project
phylogenetic trees
UPGMA
Chap 13 [Dum]
Mar 1, 3 Gene prediction Gene prediction Chap 5, pp. 145-153
Steve's extra reading
Mar 8, 10 Gene prediction data mining
review for final
Group Project 2 due
extra reading
Exam Week Final exam: Thurs, March 17, 8:30-10:30 in Butterfield 106

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