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== Lecture Schedule == | == Lecture Schedule == | ||
| − | + | <small>(This schedule is for orientation only, changes may be made at any time as the subject matter and the progress of the lecture requires. It is the current draft for 2007.)</small> | |
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| − | <small>(This schedule is for orientation only, changes may be made at any time as the subject matter and the progress of the lecture requires.)</small> | ||
<ol start="1"> | <ol start="1"> | ||
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;Sequences | ;Sequences | ||
<ol start="2"> | <ol start="2"> | ||
| − | <li>[[Lecture_02| | + | <li>[[Lecture_02|Sequence Abstraction + Sequence Databases]] (Boris, Thursday, Sept. 13) |
| − | <li>[[Lecture_03|Sequence Properties]] (Boris, Monday, Sept. 17) | + | <li>[[Lecture_03|Sequence Properties]] (Boris, Monday, Sept. 17) |
| − | <li>[[Lecture_04|Sequence Analysis]] | + | <li>[[Lecture_04|Sequence Analysis]] (Boris, Thursday, Sept. 20) |
| − | <li>[[Lecture_05|Homology I: the principles]] (Boris, Monday, Sept. 24) | + | <li>[[Lecture_05|Homology I: the principles]] (Boris, Monday, Sept. 24) |
| − | <li>[[Lecture_06|Homology II: Sequence Alignment]] (Boris, Thursday, Sept. 27) | + | <li>[[Lecture_06|Homology II: Sequence Alignment]] (Boris, Thursday, Sept. 27) |
| + | <li>[[Lecture_07|Homology III: Multiple Sequence Alignment]] (Boris, Monday, Oct. 1) | ||
| + | <li>[[Lecture_08|Homology IV: Fast Sequence Database searches]] (Boris, Thursday, Oct. 4) | ||
</ol> | </ol> | ||
| + | |||
;Structures | ;Structures | ||
| − | <ol start=" | + | <ol start="9"> |
| − | <li>[[ | + | <li>[[Lecture_09|Protein Structure Databases]] (Boris, Thursday, Oct. 11) |
| − | <li>[[ | + | <li>[[Lecture_10|Structural Domains]] (Boris, Monday, Oct. 15'''*''') |
| − | <li>[[ | + | <li>[[Lecture_11|Interpreting Protein Structure]] (Boris, Monday, Oct. 15'''*''') |
| − | <li>[[ | + | <li>[[Lecture_12|Homology Modeling + Protein Structure Prediction]] (Boris, Thursday, Oct. 18) |
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</ol> | </ol> | ||
| + | |||
| + | <p> | ||
| + | <small>('''*''') Double lecture (12:00 - 14:00) to make up for Thanksgiving, Oct 8.</small> | ||
| + | |||
;Genomes | ;Genomes | ||
<ol start="13"> | <ol start="13"> | ||
| − | <li>[[Lecture_13|Genome Sequencing]] (John, Monday, Oct. 22) | + | <li>[[Lecture_13|Genome Sequencing]] (John, Monday, Oct. 22) |
| − | <li>[[Lecture_14|Genomes]] (John, Thursday, Oct. 25) | + | <li>[[Lecture_14|Genomes]] (John, Thursday, Oct. 25) |
| − | <li>[[Lecture_15| | + | <li>[[Lecture_15|Comparative Genomics]] (John, Monday, Oct. 29) |
| − | <li>[[Lecture_16| | + | <li>[[Lecture_16|Phylogenetic Analysis]] (Boris, Thursday, Nov. 1) |
</ol> | </ol> | ||
| − | ; | + | |
| + | ;Systems | ||
<ol start="17"> | <ol start="17"> | ||
| − | <li>[[Lecture_17| | + | <li>[[Lecture_17|Functional Annotation]] (Shoshana, Monday, Nov. 5) |
| − | <li>[[Lecture_18| | + | <li>[[Lecture_18|Human Population Genomics]] (TBD, Nov. 8) |
| − | <li>[[Lecture_19| | + | <li>[[Lecture_19|Proteomics]] (TBD, Monday, Nov. 12) |
| − | + | <li>[[Lecture_20|Gene regulation I]] (Shoshana, Thursday, Nov. 15) | |
| − | + | <li>[[Lecture_21|Gene regulation II]] (Shoshana, Monday, Nov. 19) | |
| − | + | <li>[[Lecture_22|Microarray Expression Analysis]] (TBD, Thursday, Nov. 22) | |
| − | <li>[[Lecture_20| | + | <li>[[Lecture_23|Pathways and Networks]] (TBD, Monday, Nov. 26) |
| − | <li>[[Lecture_21| | + | <li>[[Lecture_24|Interaction Databases]] (TBD, Thursday, Nov. 29) |
| − | <li>[[Lecture_22| | + | <li>[[Lecture_25|Metabolic Networks]] (TBD, Monday, Dec. 3) |
| − | <li>[[Lecture_23| | + | <li>[[Lecture_26|Computational Systems Biology]] (John, Thursday, Dec. 7) |
| − | <li>[[Lecture_24|Interaction Databases]] ( | ||
| − | <li>[[Lecture_25| | ||
| − | <li>[[Lecture_26|Computational Systems Biology]] (John, Thursday, Dec. 7) | ||
</ol> | </ol> | ||
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==In depth...== | ==In depth...== | ||
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* [[Glossary]] | * [[Glossary]] | ||
Revision as of 17:45, 10 September 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 will be 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. It is the current draft for 2007.)
- 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)
- Structural Domains (Boris, Monday, Oct. 15*)
- Interpreting Protein Structure (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 (TBD, Nov. 8)
- Proteomics (TBD, Monday, Nov. 12)
- Gene regulation I (Shoshana, Thursday, Nov. 15)
- Gene regulation II (Shoshana, Monday, Nov. 19)
- Microarray Expression Analysis (TBD, Thursday, Nov. 22)
- Pathways and Networks (TBD, Monday, Nov. 26)
- Interaction Databases (TBD, Thursday, Nov. 29)
- Metabolic Networks (TBD, Monday, Dec. 3)
- Computational Systems Biology (John, Thursday, Dec. 7)
Assignments
| First Assignment | Databases and Molecular Models | to be posted Sept. 13, due Oct. 1. |
| Second Assignment | Search, Retrieve and Annotate | to be posted Sept. 24, due Oct. 8. |
| Third Assignment | Multiple Sequence Alignment | to be posted Oct. 8, due Oct. 22. |
| Fourth Assignment | Phylogenetic Analysis | to be posted Oct. 22, due Nov. 5. |
| Fifth Assignment | Homology Modeling | to be posted Nov. 5, due Nov. 19. |
| Sixth Assignment | Systems | to be posted Nov. 19, due Dec. 3. |
In depth...
Resources
- Course Wiki
- Introduction: Concept and contents of the Course Wiki
- Soapbox: A page to commmunicate. Do you want to leave a message? Alert the course members? Voice an opinion? Praise or flame? Use this page.
- Editing: Editing principles and Wiki markup syntax for the Course Wiki pages
- Sandbox: A page for your editing experiments. Content added to this page will not stay permanently.
- Feedback: Share your views on the course, suggest improvements.
- Course Web
- The Course Web site.
