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CENG 465 - Introduction to Bioinformatics (Spring 2006-2007) OVERVIEW SCHEDULE ANNOUNCEMENTS ASSIGNMENTS GRADING RESOURCES |
| Date | Lecture Topics | Reading | Assignments | |
|---|---|---|---|---|
| Week #1 |
Feb 20, Tue Feb 22, Thur |
Course Introduction Introduction to biology, biological databases, and high-throughput data sources. Overview of bioinformatics problems. Lecture Slides (PDF) Lecture Slides (PPT) |
Class Web Page Bioinformatics - An Introduction for Computer Scientists Reading on Homology |
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| Week #2 |
Feb 27, Tue Mar 01, Thur |
Pairwise sequence alignment algorithms: Dynamic programming Lecture Slides (PDF) Lecture Slides (PPT) |
ISMB sequence comparison tutorial |
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| Week #3 |
Mar 06, Tue Mar 08, Thur |
Statistical significance of alignments - Part I Statistical significance of alignments - Part II Lecture Slides (PDF) Lecture Slides (PPT) |
Statistical significance of BLAST alignments Statistical significance in biological sequence comparison |
Assignment #1 Due March 20 |
| Week #4 |
Mar 13, Tue Mar 15, Thur |
Suffix trees Suffix arrays Lecture Slides (PDF) Lecture Slides (PPT) |
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| Week #5 |
Mar 20, Tue Mar 22, Thur |
Multiple sequence alignment Lecture Slides (PDF) Lecture Slides (PPT) Review for Midterm Lecture Slides (PDF) Lecture Slides (PPT) |
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| Week #6 |
Mar 27, Tue Mar 29, Thur |
Midterm Exam I Solutions for Midterm I Phylogenetic trees |
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| Week #7 |
Apr 03, Tue Apr 05, Thur |
Cancelled. No class. Phylogenetic trees |
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| Week #8 |
Apr 10, Tue Apr 12, Thur |
Cancelled. No class. Phylogenetic trees Lecture Slides (PDF) Lecture Slides (PPT) |
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| Week #9 |
Apr 17, Tue Apr 19, Thur |
Introduction to protein structures Structure Prediction Lecture Slides (PDF) Lecture Slides (PPT) |
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Assignment #2 Due May 1 |
| Week #10 |
Apr 24, Tue Apr 26, Thur |
Threading Protein Structural Alignment Lecture Slides (PDF) Lecture Slides (PPT) |
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| Week #11 |
May 01, Tue May 03, Thur |
Protein Structural Alignment, Structure Classification Lecture Slides (PDF) Lecture Slides (PPT) Microarray data analysis, clustering techniques |
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| Week #12 |
May 08, Tue May 10, Thur |
Midterm Exam II Solutions for Midterm II No class |
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| Week #13 |
May 15, Tue May 17, Thur |
Microarray data analysis, clustering techniques Lecture Slides (PDF) Lecture Slides (PPT) Self Organizing Maps Demo K-means Demo Gene regulatory networks Lecture Slides (PDF) |
Microarray intro paper #1 Microarray intro paper #2 Microarray intro paper #3 |
Assignment #3 Due June 4 |
| Week #14 |
May 22, Tue May 24, Thur |
Analysis of protein networks: Monte Carlo Sampling, Random Walks on Graphs Lecture Slides (PDF) Lecture Slides (PPT) |
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