|
|
| (One intermediate revision by the same user not shown) |
| Line 1: |
Line 1: |
| | + | <!-- div style="padding: 5px; background: #FF4560; border:solid 2px #000000;"> |
| | + | '''Update Warning!''' |
| | + | This page has not been revised yet for the 2008 Fall term. Some of the slides may be reused, but please consider the page as a whole out of date as long as this warning appears here. |
| | + | </div --> |
| | + | |
| | + | |
| | + | |
| | + | |
| | __NOTOC__ | | __NOTOC__ |
| | <small>[[Lecture_24|(Previous lecture)]] ... [[Lecture_26|(Next lecture)]]</small> | | <small>[[Lecture_24|(Previous lecture)]] ... [[Lecture_26|(Next lecture)]]</small> |
| Line 4: |
Line 12: |
| | ==Pathways and Networks== | | ==Pathways and Networks== |
| | | | |
| − | | + | * Lecture slides linked [http://biochemistry.utoronto.ca/undergraduates/courses/BCH441H/2007/25_Pathways.pdf '''here''' (PDF format, 2.7 Mb)]. |
| − | ;A general reference for this section is the book chapter:<br>
| |
| − | :Intermolecular Interactions and Biological Pathways
| |
| − | :Gary D. Bader, Anton J. Enright
| |
| − | :in Bioinformatics 3E Eds. Andreas D. Baxevanis and B.F.Francis Ouellette. John Wiley and Sons, New Jersey
| |
| − | | |
| − | ==Lecture Slides==
| |
| − | | |
| − | | |
| − | ======Slide 001======
| |
| − | [[Image:L25_s001.jpg|frame|none|Lecture 25, Slide 001<br> | |
| − | | |
| − | ]]
| |
| − | ======Slide 002======
| |
| − | [[Image:L25_s002.jpg|frame|none|Lecture 25, Slide 002<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 003======
| |
| − | [[Image:L25_s003.jpg|frame|none|Lecture 25, Slide 003<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 004======
| |
| − | [[Image:L25_s004.jpg|frame|none|Lecture 25, Slide 004<br>
| |
| − | Ref: Pathway information for systems biology<br>
| |
| − | Cary MP, Bader GD, Sander C, FEBS Lett. 2005 Mar 21;579(8):1815-20<br>
| |
| − | Available from http://baderlab.org/Publications
| |
| − | ]]
| |
| − | ======Slide 005======
| |
| − | [[Image:L25_s005.jpg|frame|none|Lecture 25, Slide 005<br>
| |
| − | Text book versions of pathways are often not cell specific - they lack context in time and space because experimental method generally don’t have the power to map pathways at this level of resolution or we are not organized enough as a community to map one pathway in one cell. Genomic and proteomic approaches will help us map whole pathways with single experimental methods in individual cell types in the future.
| |
| − | ]]
| |
| − | ======Slide 006======
| |
| − | [[Image:L25_s006.jpg|frame|none|Lecture 25, Slide 006<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 007======
| |
| − | [[Image:L25_s007.jpg|frame|none|Lecture 25, Slide 007<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 008======
| |
| − | [[Image:L25_s008.jpg|frame|none|Lecture 25, Slide 008<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 009======
| |
| − | [[Image:L25_s009.jpg|frame|none|Lecture 25, Slide 009<br>
| |
| − | Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry<br>
| |
| − | Ho Y ''et al.'' Nature 2002 Jan 10;415(6868): 180-183<br>
| |
| − | Available from http://baderlab.org/Publications
| |
| − | ]]
| |
| − | ======Slide 010======
| |
| − | [[Image:L25_s010.jpg|frame|none|Lecture 25, Slide 010<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 011======
| |
| − | [[Image:L25_s011.jpg|frame|none|Lecture 25, Slide 011<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 012======
| |
| − | [[Image:L25_s012.jpg|frame|none|Lecture 25, Slide 012<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 013======
| |
| − | [[Image:L25_s013.jpg|frame|none|Lecture 25, Slide 013<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 014======
| |
| − | [[Image:L25_s014.jpg|frame|none|Lecture 25, Slide 014<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 015======
| |
| − | [[Image:L25_s015.jpg|frame|none|Lecture 25, Slide 015<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 016======
| |
| − | [[Image:L25_s016.jpg|frame|none|Lecture 25, Slide 016<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 017======
| |
| − | [[Image:L25_s017.jpg|frame|none|Lecture 25, Slide 017<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 018======
| |
| − | [[Image:L25_s018.jpg|frame|none|Lecture 25, Slide 018<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 019======
| |
| − | [[Image:L25_s019.jpg|frame|none|Lecture 25, Slide 019<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 020======
| |
| − | [[Image:L25_s020.jpg|frame|none|Lecture 25, Slide 020<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 021======
| |
| − | [[Image:L25_s021.jpg|frame|none|Lecture 25, Slide 021<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 022======
| |
| − | [[Image:L25_s022.jpg|frame|none|Lecture 25, Slide 022<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 023======
| |
| − | [[Image:L25_s023.jpg|frame|none|Lecture 25, Slide 023<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 024======
| |
| − | [[Image:L25_s024.jpg|frame|none|Lecture 25, Slide 024<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 025======
| |
| − | [[Image:L25_s025.jpg|frame|none|Lecture 25, Slide 025<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 026======
| |
| − | [[Image:L25_s026.jpg|frame|none|Lecture 25, Slide 026<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 027======
| |
| − | [[Image:L25_s027.jpg|frame|none|Lecture 25, Slide 027<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 028======
| |
| − | [[Image:L25_s028.jpg|frame|none|Lecture 25, Slide 028<br>
| |
| − | Active modules reference:<br>
| |
| − | Ideker T, Ozier O, Schwikowski B, Siegel AF. Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics. 2002;18 Suppl 1:S233-40. <br>
| |
| − | http://www.pathblast.org/<br>
| |
| − | http://www.agilent.com/labs/research/mtl/projects/sysbio/sysinformatics/litsearch.html
| |
| − | ]]
| |
| − | ======Slide 029======
| |
| − | [[Image:L25_s029.jpg|frame|none|Lecture 25, Slide 029<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 030======
| |
| − | [[Image:L25_s030.jpg|frame|none|Lecture 25, Slide 030<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 031======
| |
| − | [[Image:L25_s031.jpg|frame|none|Lecture 25, Slide 031<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 032======
| |
| − | [[Image:L25_s032.jpg|frame|none|Lecture 25, Slide 032<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 033======
| |
| − | [[Image:L25_s033.jpg|frame|none|Lecture 25, Slide 033<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 034======
| |
| − | [[Image:L25_s034.jpg|frame|none|Lecture 25, Slide 034<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 035======
| |
| − | [[Image:L25_s035.jpg|frame|none|Lecture 25, Slide 035<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 036======
| |
| − | [[Image:L25_s036.jpg|frame|none|Lecture 25, Slide 036<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 037======
| |
| − | [[Image:L25_s037.jpg|frame|none|Lecture 25, Slide 037<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 038======
| |
| − | [[Image:L25_s038.jpg|frame|none|Lecture 25, Slide 038<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 039======
| |
| − | [[Image:L25_s039.jpg|frame|none|Lecture 25, Slide 039<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 040======
| |
| − | [[Image:L25_s040.jpg|frame|none|Lecture 25, Slide 040<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 041======
| |
| − | [[Image:L25_s041.jpg|frame|none|Lecture 25, Slide 041<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 042======
| |
| − | [[Image:L25_s042.jpg|frame|none|Lecture 25, Slide 042<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 043======
| |
| − | [[Image:L25_s043.jpg|frame|none|Lecture 25, Slide 043<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 044======
| |
| − | [[Image:L25_s044.jpg|frame|none|Lecture 25, Slide 044<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 045======
| |
| − | [[Image:L25_s045.jpg|frame|none|Lecture 25, Slide 045<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 046======
| |
| − | [[Image:L25_s046.jpg|frame|none|Lecture 25, Slide 046<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 047======
| |
| − | [[Image:L25_s047.jpg|frame|none|Lecture 25, Slide 047<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 048======
| |
| − | [[Image:L25_s048.jpg|frame|none|Lecture 25, Slide 048<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 049======
| |
| − | [[Image:L25_s049.jpg|frame|none|Lecture 25, Slide 049<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 050======
| |
| − | [[Image:L25_s050.jpg|frame|none|Lecture 25, Slide 050<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 051======
| |
| − | [[Image:L25_s051.jpg|frame|none|Lecture 25, Slide 051<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 052======
| |
| − | [[Image:L25_s052.jpg|frame|none|Lecture 25, Slide 052<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 053======
| |
| − | [[Image:L25_s053.jpg|frame|none|Lecture 25, Slide 053<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 054======
| |
| − | [[Image:L25_s054.jpg|frame|none|Lecture 25, Slide 054<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 055======
| |
| − | [[Image:L25_s055.jpg|frame|none|Lecture 25, Slide 055<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 056======
| |
| − | [[Image:L25_s056.jpg|frame|none|Lecture 25, Slide 056<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 057======
| |
| − | [[Image:L25_s057.jpg|frame|none|Lecture 25, Slide 057<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 058======
| |
| − | [[Image:L25_s058.jpg|frame|none|Lecture 25, Slide 058<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 059======
| |
| − | [[Image:L25_s059.jpg|frame|none|Lecture 25, Slide 059<br>
| |
| − | | |
| − | ]]
| |
| − | ======Slide 060======
| |
| − | [[Image:L25_s060.jpg|frame|none|Lecture 25, Slide 060<br>
| |
| − | Movie can be downloaded from http://www.studiodaily.com/main/searchlist/6850.html <br>
| |
| − | or download from http://baderlab.org/Home?action=AttachFile&do=get&target=InnerCellLife.mov
| |
| − | ]]
| |
