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Designing Your Course
Sample Syllabus
BIO/CS 371 - Introduction to Bioinformatics
Course Schedule
BIO/CS 371 Introduction to Bioinformatics: Tools-oriented approach
to bioinformatics with emphasis on: data structure in DNA; data
searches and pairwise alignments; substitution patterns; protein
folding; and proteomics. Prerequisite: CS 240 or equivalent, BIO
112
Text Books and Other Source Materials
D. E. Krane and M. L. Raymer, Undergraduate textbook on bioinformatics,
Benjamin-Cummings, available Fall, 2002.
J. Setubal and J. Meidanis, Introduction to Computational Molecular
Biology.
Coordinator(s)
Dan E. Krane, Associate Professor of Biological Sciences
Michael L. Raymer, Assistant Professor of Computer Science and Engineering
Travis Doom, Assistant Professor of Computer Science and Engineering
Schedule
Each week has two lectures of 75 minutes each. No labs are scheduled.
Students are expected to work in open computer laboratories for
no less than 2 hours a week.
Prerequisite by Topic (computer
science and biology)
1. Structured object-oriented programming
2. The central dogma of molecular biology
3. Molecular and cellular basis for the unity of life
4. Evolution
Course schedule
| Module I |
Topics |
Reading |
| Information storage in DNA |
Ch 1 |
| Tools of molecular biology |
Ch 1 |
| Molecular data repositories |
Ch 1 |
| Data searches and pairwise alignments |
Ch 2 |
| Cluster analyses and multiple alignments |
Ch 4 |
| Parsimony approaches to phylogenetics |
Ch 5 |
| Module II |
Gene recognition |
Ch 6 |
| Prokaryotic genomes and structure |
Ch 6 |
| Eukaryotic genomes and structure |
Ch 6 |
| Gene density and mapping |
Ch 6 |
| DNA microarrays |
Ref |
| Module III |
Predicting RNA secondary structures |
Ch 7 |
| Protein folding |
Ch 7 |
| Phi/psi, and secondary sturucture |
Ch 7 |
| Structural modeling |
Ref |
| Visualization |
Ref |
Grading:
Home work (10%); Announced Quizzes (20%); Midterm examinations
I and II (20% each); Final examination (30%). |
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