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CENG 465 - Introduction to Bioinformatics (Spring 2010-2011) OVERVIEW SCHEDULE ASSIGNMENTS RESOURCES |
| Date | Lecture Topics | Reading | Assignments | |
|---|---|---|---|---|
| Week #1 |
Feb 17, Thur Feb 18, Fri |
Classes start on February 17 Course Introduction Lecture Slides No class on February 18 Friday. |
Class Web Page |
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| Week #2 |
Feb 24, Thur Feb 25, Fri |
Introduction to biology, biological databases, and high-throughput data sources. Overview of bioinformatics problems. Pairwise sequence alignment algorithms: Dynamic programming Lecture Slides |
Bioinformatics - An Introduction for Computer Scientists Introduction to Molecular Biology More reading on cells and genomes: Cells and Genomes How cells read the genome |
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| Week #3 |
Mar 3, Thur Mar 4, Fri |
Statistical significance of alignments - Part I Statistical significance of alignments - Part II Lecture Slides |
Pairwise Sequence Alignment Statistical Significance of Alignments Statistical Significance of Alignments (Reading 2) |
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| Week #4 |
Mar 10, Thur Mar 11, Fri |
Thursday lecture on March 10 is cancelled Suffix Trees, Suffix Arrays Lecture Slides |
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| Week #5 |
Mar 17, Thur Mar 18, Fri |
Patterns, Profiles, and Multiple Alignments Lecture Slides |
Chapter 6 from the textbook |
Assignment #1 DUE DATE: March 28, Midnight |
| Week #6 |
Mar 24, Thur Mar 25, Fri |
Hidden Markov Models Week 5 Lecture Slides Continued |
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| Week #7 |
Mar 31, Thur Apr 01, Fri |
Multiple Sequence Alignment Algorithms Week 5 Lecture Slides Continued |
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| Week #8 |
Apr 7, Thur Apr 8, Fri |
Phylogenetic trees Introduction to protein structures Lecture Slides |
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Assignment #2 DUE DATE: April 28, 11:55PM |
| Week #9 |
Apr 14, Thur Apr 15, Fri |
Structure Prediction Midterm Exam (at 10:40 in BMB-1) Lecture Slides |
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| Week #10 |
Apr 21, Thur Apr 22, Fri |
Protein Structure Prediction (continued) |
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| Week #11 |
Apr 28, Thur Apr 29, Fri |
Protein Structure Prediction (continued) |
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Assignment #3 DUE DATE: May 15, 11:55PM |
| Week #12 |
May 5, Thur May 6, Fri |
Structural Alignment of Proteins (lecture notes continued) |
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| Week #13 |
May 12, Thur May 13, Fri |
Microarray data analysis Clustering techniques Lecture Slides K-means Empty Cluster Example K-means Demo Self Organizing Maps Demo |
Microarrays Intro Paper - 1 Microarrays Intro Paper - 2 Microarrays Intro Paper - 3 |
Assignment #4 DUE DATE: May 30, 11:55PM |
| Week #14 |
May 19, Thur May 20, Fri |
No class on Thursday Introduction to Systems Biology Gene regulatory networks Lecture Slides |
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| Week #15 |
May 26, Thur May 27, Fri |
Construction and Analysis of protein networks: Bayesian construction and clustering algorithms Lecture Slides Likelihood Computation Example |
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