Difference between revisions of "Lecture 17"

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'''Update Warning!'''
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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 Some of the slides may be reused, but please consider the page as a whole out of date as long as this warning appears here.
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<small>[[Lecture_16|(Previous lecture)]] ... [[Lecture_18|(Next lecture)]]</small>  
 
<small>[[Lecture_16|(Previous lecture)]] ... [[Lecture_18|(Next lecture)]]</small>  
  
==Phylogenetic Analysis==
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==Functional Annotation==
 
 
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Add:
 
* Summary points
 
* Exercises
 
* Further reading
 
 
 
==Lecture Slides==
 
 
 
 
 
 
 
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[[Image:L17_s001.jpg|frame|none|Lecture 17, Slide 001<br>
 
 
 
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[[Image:L17_s002.jpg|frame|none|Lecture 17, Slide 002<br>
 
 
 
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[[Image:L17_s003.jpg|frame|none|Lecture 17, Slide 003<br>
 
 
 
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[[Image:L17_s004.jpg|frame|none|Lecture 17, Slide 004<br>
 
 
 
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[[Image:L17_s005.jpg|frame|none|Lecture 17, Slide 005<br>
 
 
 
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[[Image:L17_s006.jpg|frame|none|Lecture 17, Slide 006<br>
 
 
 
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[[Image:L17_s007.jpg|frame|none|Lecture 17, Slide 007<br>
 
 
 
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[[Image:L17_s008.jpg|frame|none|Lecture 17, Slide 008<br>
 
 
 
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[[Image:L17_s009.jpg|frame|none|Lecture 17, Slide 009<br>
 
 
 
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[[Image:L17_s010.jpg|frame|none|Lecture 17, Slide 010<br>
 
 
 
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[[Image:L17_s011.jpg|frame|none|Lecture 17, Slide 011<br>
 
 
 
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[[Image:L17_s012.jpg|frame|none|Lecture 17, Slide 012<br>
 
Usually, analysis of confidence implies a "bootstrapping" procedure: rerun the analysis many times with partial data and analyze which features of the tree (branching order -> topology!) are well conserved, and which ones depend critically on unreliable features of the input data.
 
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[[Image:L17_s013.jpg|frame|none|Lecture 17, Slide 013<br>
 
 
 
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[[Image:L17_s014.jpg|frame|none|Lecture 17, Slide 014<br>
 
Note that distance methods first reduce the explicit molecular data into a matrix of pairwise distances, then operate on that "summary" to construct the most plausible tree. They are fast, but less accurate than some alternatives.
 
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[[Image:L17_s015.jpg|frame|none|Lecture 17, Slide 015<br>
 
 
 
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[[Image:L17_s016.jpg|frame|none|Lecture 17, Slide 016<br>
 
 
 
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[[Image:L17_s017.jpg|frame|none|Lecture 17, Slide 017<br>
 
 
 
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[[Image:L17_s018.jpg|frame|none|Lecture 17, Slide 018<br>
 
 
 
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[[Image:L17_s019.jpg|frame|none|Lecture 17, Slide 019<br>
 
 
 
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[[Image:L17_s020.jpg|frame|none|Lecture 17, Slide 020<br>
 
 
 
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[[Image:L17_s021.jpg|frame|none|Lecture 17, Slide 021<br>
 
 
 
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[[Image:L17_s022.jpg|frame|none|Lecture 17, Slide 022<br>
 
 
 
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[[Image:L17_s023.jpg|frame|none|Lecture 17, Slide 023<br>
 
Genomes are and always have been exquisitly plastic, malleable entities. That we have long thought this not to be the case is a consequence of our limited personal experience and anthropocentric world view.
 
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[[Image:L17_s024.jpg|frame|none|Lecture 17, Slide 024<br>
 
 
 
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[[Image:L17_s025.jpg|frame|none|Lecture 17, Slide 025<br>
 
 
 
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[[Image:L17_s026.jpg|frame|none|Lecture 17, Slide 026<br>
 
 
 
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[[Image:L17_s027.jpg|frame|none|Lecture 17, Slide 027<br>
 
  
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* Lecture slides linked [http://biochemistry.utoronto.ca/undergraduates/courses/BCH441H/2007/17_FunctionalAnnotation.pdf '''here''' (PDF format, 9.9 Mb)].

Latest revision as of 18:48, 11 December 2007

 

 


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Functional Annotation