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Update MCB lecture

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trvrb committed Oct 16, 2017
1 parent a7b5446 commit 55382e956ae31d4f3aef93246162c89db9fdd988
Showing with 13 additions and 4 deletions.
  1. BIN images/clock_zika_timings.png
  2. +13 −4 phylogenetics-and-virus-evolution.html
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@@ -143,12 +143,21 @@ <h3>Allows conversion between branch length and time</h3>
<img class="stretch" src="images/clock_flu_timetree.png">
</section>

<section>
<h3>Dated phylogenies provide real-world context</h3>
<img class="stretch" src="images/clock_zika_timings.png">
<div class="citation">
<a href="http://bedford.io/papers/grubaugh-zika-in-florida/">Grubaugh et al. 2017. Nature.</a>
</div>
</section>

<section data-background="#63AC9A">
<h2 class="title">Inference of discrete traits</h2>
</section>

<section>
<h3>"Data" is a phylogeny and tip states</h3>
<p>States include nucleotides, amino acids, geo locations, hosts, etc...</p>
<img class="stretch" src="images/phylogeo_inference_data.png">
</section>

@@ -213,7 +222,7 @@ <h3>Ebola phylogeny shows frequent migration events</h3>
<h2 class="title">Reservoir species and host jumps</h2>
</section>

<section>
<!-- <section>
<h3>Influenza has a reservoir in wild birds, spillovers sometimes become endemic</h3>
<img class="stretch" src="images/spillover_influenza_tree.png">
</section>
@@ -226,7 +235,7 @@ <h3>Each Ebola outbreak derives from a separate spillover event</h3>
Gire et al. 2014. Science.
</a>
</div>
</section>
</section> -->

<section>
<h3>MERS-CoV has frequent spillover events, but limited human-to-human transmission</h3>
@@ -238,7 +247,7 @@ <h3>MERS-CoV has frequent spillover events, but limited human-to-human transmiss
</div>
</section>

<section data-background="#94BD62">
<!-- <section data-background="#94BD62">
<h2 class="title">Reassortment and recombination</h2>
</section>
@@ -272,7 +281,7 @@ <h3>Linkage disequilibrium decays with physical distance</h3>
<div class="citation">
<a href="https://elifesciences.org/articles/11282">Zanini et al. 2015. eLife.</a>
</div>
</section>
</section> -->

</div>

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