|
|
| (139 intermediate revisions by 2 users not shown) |
| Line 1: |
Line 1: |
| − | <div style="padding: 5px; background: #457DB5; border:solid 1px #AAAAAA; font-size:300%;font-weight:bold; color:#FFFFFF">
| + | #REDIRECT [[Bioinformatics_Main_Page]] |
| − | BCH441 - Bioinformatics
| |
| | | | |
| − | <div style="font-size:50%;font-weight:normal;">
| + | {{Vspace}} |
| − | Welcome to the BCH441 Course Wiki.
| |
| − | </div>
| |
| − | </div>
| |
| − |
| |
| | | | |
| | + | <div id="BIO"> |
| | + | <div class="b1" style="padding-left:7%;"> |
| | | | |
| | + | <br/> |
| | | | |
| − | | + | <div style="font-size:150%;font-weight:bold;"> |
| − | | + | [[Bioinformatics_Main_Page|<span style="color:#FFFFFF;">A B C</span>]] |
| − | | |
| − | <small>'''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 [http://en.wikipedia.org/wiki/Bioinformatics Wikipedia article on bioinformatics], or visit [http://wikiomics.org/wiki/Main_Page Wikiomics]. Contact boris.steipe(at)utoronto.ca with any questions you may have.</small>
| |
| − | | |
| − | == 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
| |
| − | :<small>A tutorial session for Bioinformatics and Computational Biology Specialists will be offered Mondays, from 13:00 to 14:00.</small>
| |
| − | | |
| − | ;Location | |
| − | :MSB 2173
| |
| − | | |
| − | See the [http://biochemistry.utoronto.ca/undergraduates/courses/BCH441H/ Course Web page] for general information.
| |
| − | | |
| − | == 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. This is the current draft for 2007 and has not been confirmed by all lecturers.)</small>
| |
| − | | |
| − | <ol start="1">
| |
| − | <li>[[Lecture_01|'''Organisation and Orientation''']] (Boris, Monday, Sept. 10)
| |
| − | </ol> | |
| − | | |
| − | ;Sequences
| |
| − | <ol start="2">
| |
| − | <li>[[Lecture_02|'''Sequence Abstraction + Sequence Databases''']] (Boris, Thursday, Sept. 13) | |
| − | <li>[[Lecture_03|'''Sequence Properties''']] (Boris, Monday, Sept. 17)
| |
| − | <li>[[Lecture_04|'''Sequence Analysis''']] (Boris, Thursday, Sept. 20)
| |
| − | <li>[[Lecture_05|'''Homology I: the principles''']] (Boris, Monday, Sept. 24)
| |
| − | <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)
| |
| | </div> | | </div> |
| − | </ol>
| |
| | | | |
| | + | [[Bioinformatics_Main_Page|<span style="color:#FFFFFF;">Applying Bioinformatics Concepts</span>]] |
| | | | |
| − | ;Structures
| + | <div style="font-size:50%;font-weight:bold;"> |
| − | <ol start="9"> | + | [[Bioinformatics_Main_Page|<span style="color:#FFFFFF;">Boris Steipe (2006 – 2020)</span>]] |
| − | <div style="color: #AAAAAA;"> | |
| − | <li>[[Lecture_09|Protein Structure Databases]] (Boris, Thursday, Oct. 11)
| |
| − | <li>[[Lecture_10|Structural Domains]] (Boris, Monday, Oct. 15'''*''')
| |
| − | <li>[[Lecture_11|Interpreting Protein Structure]] (Boris, Monday, Oct. 15'''*''') | |
| − | <li>[[Lecture_12|Homology Modeling + Protein Structure Prediction]] (Boris, Thursday, Oct. 18)
| |
| | </div> | | </div> |
| − | </ol>
| |
| | | | |
| − | <p> | + | <br/> |
| − | <small>('''*''') Double lecture (12:00 - 14:00) to make up for Thanksgiving, Oct 8.</small>
| |
| | | | |
| − | ;Genomes
| |
| − | <ol start="13">
| |
| − | <div style="color: #AAAAAA;">
| |
| − | <li>[[Lecture_13|Genome Sequencing]] (John, Monday, Oct. 22)
| |
| − | <li>[[Lecture_14|Genomes]] (John, Thursday, Oct. 25)
| |
| − | <li>[[Lecture_15|Comparative Genomics]] (John, Monday, Oct. 29)
| |
| − | <li>[[Lecture_16|Phylogenetic Analysis]] (Boris, Thursday, Nov. 1)
| |
| | </div> | | </div> |
| − | </ol>
| |
| − |
| |
| − | ;Systems
| |
| − | <ol start="17">
| |
| − | <div style="color: #AAAAAA;">
| |
| − | <li>[[Lecture_17|Functional Annotation]] (Shoshana, Monday, Nov. 5)
| |
| − | <li>[[Lecture_18|Human Population Genomics]] (TBD, Nov. 8)
| |
| − | <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_23|Pathways and Networks]] (TBD, Monday, Nov. 26)
| |
| − | <li>[[Lecture_24|Interaction Databases]] (TBD, Thursday, Nov. 29)
| |
| − | <li>[[Lecture_25|Metabolic Networks]] (TBD, Monday, Dec. 3)
| |
| − | <li>[[Lecture_26|Computational Systems Biology]] (John, Thursday, Dec. 7)
| |
| | </div> | | </div> |
| − | </ol>
| |
| − |
| |
| − | == Assignments ==
| |
| − |
| |
| − |
| |
| − |
| |
| − | <table border="0" cellpadding="5">
| |
| − | <tr>
| |
| − | <td>[[Assignment_1|'''First Assignment''']]</td>
| |
| − | <td>Databases and Molecular Models</td>
| |
| − | <td>''posted Sept. 13, due Oct. 1.''</td>
| |
| − | </tr>
| |
| − |
| |
| − | <tr>
| |
| − | <td>[[Assignment_2|'''Second Assignment''']]</td>
| |
| − | <td>Search, Retrieve and Annotate</td>
| |
| − | <td>''posted Sept. 24, due Oct. 9.''</td>
| |
| − | </tr>
| |
| − |
| |
| − | <tr>
| |
| − | <td>[[Assignment_3|'''Third Assignment''']]</td>
| |
| − | <td>Multiple Sequence Alignment</td>
| |
| − | <td>posted Oct. 10, due Oct. 22.</td>
| |
| − | </tr>
| |
| − |
| |
| − | <tr>
| |
| − | <td>[[Assignment_4|'''Fourth Assignment''']]</td>
| |
| − | <td>Phylogenetic Analysis</td>
| |
| − | <td>''to be posted Oct. 22, due Nov. 5.''</td>
| |
| − | </tr>
| |
| − |
| |
| − | <tr>
| |
| − | <td>[[Assignment_5|'''Fifth Assignment''']]</td>
| |
| − | <td>Homology Modeling</td>
| |
| − | <td>''to be posted Nov. 5, due Nov. 19.''</td>
| |
| − | </tr>
| |
| − |
| |
| − | <tr>
| |
| − | <td>[[Assignment_6|'''Sixth Assignment''']]</td>
| |
| − | <td>Systems</td>
| |
| − | <td>''to be posted Nov. 19, due Dec. 3.''</td>
| |
| − | </tr>
| |
| − | </table>
| |
| − |
| |
| − |
| |
| − | ==In depth...==
| |
| − |
| |
| − | * [[Glossary]]
| |
| − | * [[Mutation Data Matrices]]
| |
| − | <!-- * [[Database Identifiers]] -->
| |
| − |
| |
| − |
| |
| − |
| |
| − | == Resources ==
| |
| − | ;Course related
| |
| − | *The [http://biochemistry.utoronto.ca/undergraduates/courses/BCH441H/ Course Web site].
| |
| − | *The [http://groups.google.com/group/bch441_2007 Course Google Group].
| |
| − | *[[Netiquette]] for the Group mailing list
| |
| − | *Previous [[Exam_questions]]
| |
| − | <br>
| |
| − | ;Contents related
| |
| − | *A '''[[Stereo Vision]]''' tutorial
| |
| − | *[http://biodatabase.org/index.php/Main_Page MetaDatabase]
| |
| − | <br>
| |
| − |
| |
| − |
| |
| − |
| |
| − | <!--
| |
| − | ;Course Wiki
| |
| − | *[[Help:Introduction|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.
| |
| − | *[[Help:Editing| 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.
| |
| − | -->
| |
| − |
| |
| − |
| |
| − |
| |
| − | <br>
| |
| − |
| |
| − |
| |
| − |
| |
| − | <!--- Color schemes
| |
| − | <div style="padding: 3px; background: #457DB5; border:solid 1px #AAAAAA;">Level 1</div>
| |
| − |
| |
| − | <div style="padding: 3px; background: #6F9BD0; border:solid 1px #AAAAAA;">Level 2</div>
| |
| − |
| |
| − | <div style="padding: 3px; background: #9CC86F; border:solid 1px #AAAAAA;">Level 3</div>
| |
| − |
| |
| − | <div style="padding: 3px; background: #F0F07A; border:solid 1px #AAAAAA;">Alert</div>
| |
| − |
| |
| − | <div style="padding: 3px; background: #FF4560; border:solid 1px #AAAAAA;">Warning!</div>
| |
| − |
| |
| − | --->
| |
