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Revision as of 12:05, 6 December 2007
BCH441 - Bioinformatics
Welcome to the BCH441 Course Wiki.
This is our main tool to coordinate information, activities and projects in University of Toronto's bioinformatics course BCH441. If you are not one of our students, you can still browse this site, however only users with a login account can edit or contribute or edit material. If you are here because you are interested in general aspects of bioinformatics or computational biology, you may want to review the Wikipedia article on bioinformatics, or visit Wikiomics. Contact boris.steipe(at)utoronto.ca with any questions you may have.
Organization
The first lecture of the 2007 Fall term was held Monday, Sept. 10, 12:00.
- Dates
- Monday and Thursday, 12:00 to 13:00
- A tutorial session for Bioinformatics and Computational Biology Specialists will be offered Mondays, from 13:00 to 14:00.
- Location
- MSB 2173
See the Course Web page for general information.
Lecture Schedule
(This schedule is for orientation only, changes may be made at any time as the subject matter and the progress of the lecture requires. This is the current draft for 2007 and has not been confirmed by all lecturers.)
- Organisation and Orientation (Boris, Monday, Sept. 10)
- Sequences
- Sequence Abstraction + Sequence Databases (Boris, Thursday, Sept. 13)
- Sequence Properties (Boris, Monday, Sept. 17)
- Sequence Analysis (Boris, Thursday, Sept. 20)
- Homology I: the principles (Boris, Monday, Sept. 24)
- Homology II: Sequence Alignment (Boris, Thursday, Sept. 27)
- Homology III: Multiple Sequence Alignment (Boris, Monday, Oct. 1)
- Homology IV: Fast Sequence Database searches (Boris, Thursday, Oct. 4)
- Structures
- Protein Structure Databases (Boris, Thursday, Oct. 11)
- Interpreting Protein Structure (Boris, Monday, Oct. 15*)
- Structural Domains (Boris, Monday, Oct. 15*)
- Homology Modeling + Protein Structure Prediction (Boris, Thursday, Oct. 18)
(*) Double lecture (12:00 - 14:00) to make up for Thanksgiving, Oct 8.
- Genomes
- Genome Sequencing (John, Monday, Oct. 22)
- Genomes (John, Thursday, Oct. 25)
- Comparative Genomics (John, Monday, Oct. 29)
- Phylogenetic Analysis (Boris, Thursday, Nov. 1)
- Systems
- Functional Annotation (Shoshana, Monday, Nov. 5)
- Human Population Genomics (Boris, Nov. 8)
- Proteomics (TBD, Monday, Nov. 12)
- Gene regulation I (Shoshana, Thursday, Nov. 15)
- Gene regulation II (Shoshana, Monday, Nov. 19)
- Microarray Expression Analysis (Tim Hughes, Thursday, Nov. 22)
- Pathways and Networks (Gary Bader, Monday, Nov. 26)
- Interaction Databases (Francis Ouelette, OICR, Thursday, Nov. 29)
- Metabolic Networks (Shoshana, Monday, Dec. 3)
- Computational Systems Biology (John, Thursday, Dec. 7)
Assignments
| First Assignment | Databases and Molecular Models | posted Sept. 13, due Oct. 1. |
| Second Assignment | Search, Retrieve and Annotate | posted Sept. 24, due Oct. 9. |
| Third Assignment | Multiple Sequence Alignment | posted Oct. 10, due Oct. 22. |
| Fourth Assignment | Homology Modeling | posted Nov. 1, due Nov. 12. |
| Fifth Assignment | Phylogenetic Analysis | posted Nov. 28, due Dec. 7. |
| Sixth Assignment | Systems | posted Dec. 4, due Dec. 7 (last day of class) |
In depth...
Resources
- Course related
- The Course Web site.
- The Course Google Group.
- Netiquette for the Group mailing list
- Previous Exam_questions
- Contents related
- A Stereo Vision tutorial
- MetaDatabase
