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	<title>Comments on: Natural selection &amp; recombination in the human genome</title>
	<atom:link href="http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/feed/" rel="self" type="application/rss+xml" />
	<link>http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/</link>
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		<title>By: More on recombination &#38; natural selection &#124; Gene Expression &#124; Discover Magazine</title>
		<link>http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/#comment-20714</link>
		<dc:creator>More on recombination &#38; natural selection &#124; Gene Expression &#124; Discover Magazine</dc:creator>
		<pubDate>Sun, 28 Mar 2010 18:31:50 +0000</pubDate>
		<guid isPermaLink="false">http://blogs.discovermagazine.com/gnxp/?p=3239#comment-20714</guid>
		<description>[...] follow up to the post below, see John Hawks, Selection&#8217;s genome-wide effect on population differentiation and [...] </description>
		<content:encoded><![CDATA[<p>[...] follow up to the post below, see John Hawks, Selection&#8217;s genome-wide effect on population differentiation and [...] </p>
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		<title>By: Natural selection and recombination -Gene Expression</title>
		<link>http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/#comment-20713</link>
		<dc:creator>Natural selection and recombination -Gene Expression</dc:creator>
		<pubDate>Sun, 28 Mar 2010 18:21:52 +0000</pubDate>
		<guid isPermaLink="false">http://blogs.discovermagazine.com/gnxp/?p=3239#comment-20713</guid>
		<description>[...] has a nice discussion of an interesting observation just published in PLoS Genetics&#8211; that there is a negative [...] </description>
		<content:encoded><![CDATA[<p>[...] has a nice discussion of an interesting observation just published in PLoS Genetics&#8211; that there is a negative [...] </p>
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		<title>By: Razib Khan</title>
		<link>http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/#comment-20712</link>
		<dc:creator>Razib Khan</dc:creator>
		<pubDate>Sun, 28 Mar 2010 11:21:56 +0000</pubDate>
		<guid isPermaLink="false">http://blogs.discovermagazine.com/gnxp/?p=3239#comment-20712</guid>
		<description>rich, they have a citation for this effect, but i didn&#039;t follow up on them. i assumed that their logic was similar to the fact that highly deleterious alleles have smaller times until fixation, because there&#039;s no way that they&#039;ll it if the transient is long. so the way i understood them is that smaller populations have more stochastic dynamics, and once the deleterious allele is yanked upward in frequency, the stamping down by negative selection is more powerful, so it leaves a bigger &#039;background selection&#039; imprint. it actually doesn&#039;t make total sense to me, so i might follow it up myself (i might be understanding this wrong, but they didn&#039;t seem to make it too complicated in the paper).</description>
		<content:encoded><![CDATA[<p>rich, they have a citation for this effect, but i didn&#8217;t follow up on them. i assumed that their logic was similar to the fact that highly deleterious alleles have smaller times until fixation, because there&#8217;s no way that they&#8217;ll it if the transient is long. so the way i understood them is that smaller populations have more stochastic dynamics, and once the deleterious allele is yanked upward in frequency, the stamping down by negative selection is more powerful, so it leaves a bigger &#8216;background selection&#8217; imprint. it actually doesn&#8217;t make total sense to me, so i might follow it up myself (i might be understanding this wrong, but they didn&#8217;t seem to make it too complicated in the paper).</p>
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		<title>By: Rich</title>
		<link>http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/#comment-20711</link>
		<dc:creator>Rich</dc:creator>
		<pubDate>Sat, 27 Mar 2010 23:13:11 +0000</pubDate>
		<guid isPermaLink="false">http://blogs.discovermagazine.com/gnxp/?p=3239#comment-20711</guid>
		<description>I don&#039;t follow this:

&quot;First, the smaller effective population sizes of non-African groups results in greater efficacy of background selection. As random genetic drift tends to increase the frequency of deleterious alleles, powerful negative selection is given opportunity work against that region of the genome. This results in more background selection as adjacent genomic regions are impacted.&quot;

In larger populations, natural selection is more effective (there are fewer effectively neutral mutations -- those with -1 less than Ns less than 1), which will lead to more fixations of slightly beneficial mutations and loss of slightly deleterious mutations due to selection. The background selection you&#039;re talking about here (i.e., what&#039;s occurring in small populations) won&#039;t leave as large of a signature around the deleterious allele because it&#039;s an older variant, and recombination would have decreased LD around that site. Is this idea expanded on in the paper? The fact that larger populations have smaller haplotype blocks, more segregating variation, etc is what&#039;s important, right?</description>
		<content:encoded><![CDATA[<p>I don&#8217;t follow this:</p>
<p>&#8220;First, the smaller effective population sizes of non-African groups results in greater efficacy of background selection. As random genetic drift tends to increase the frequency of deleterious alleles, powerful negative selection is given opportunity work against that region of the genome. This results in more background selection as adjacent genomic regions are impacted.&#8221;</p>
<p>In larger populations, natural selection is more effective (there are fewer effectively neutral mutations &#8212; those with -1 less than Ns less than 1), which will lead to more fixations of slightly beneficial mutations and loss of slightly deleterious mutations due to selection. The background selection you&#8217;re talking about here (i.e., what&#8217;s occurring in small populations) won&#8217;t leave as large of a signature around the deleterious allele because it&#8217;s an older variant, and recombination would have decreased LD around that site. Is this idea expanded on in the paper? The fact that larger populations have smaller haplotype blocks, more segregating variation, etc is what&#8217;s important, right?</p>
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		<title>By: Tweets that mention Natural selection &#38; recombination in the human genome &#124; Gene Expression &#124; Discover Magazine -- Topsy.com</title>
		<link>http://blogs.discovermagazine.com/gnxp/2010/03/natural-selection-recombination-in-the-human-genome/#comment-20710</link>
		<dc:creator>Tweets that mention Natural selection &#38; recombination in the human genome &#124; Gene Expression &#124; Discover Magazine -- Topsy.com</dc:creator>
		<pubDate>Fri, 26 Mar 2010 19:25:29 +0000</pubDate>
		<guid isPermaLink="false">http://blogs.discovermagazine.com/gnxp/?p=3239#comment-20710</guid>
		<description>[...] This post was mentioned on Twitter by razib khan, Ron Simon and Shrikant Mantri, J.S.. J.S. said: Natural selection &amp; recombination in the human genome http://ow.ly/16TPYy [...] </description>
		<content:encoded><![CDATA[<p>[...] This post was mentioned on Twitter by razib khan, Ron Simon and Shrikant Mantri, J.S.. J.S. said: Natural selection &amp; recombination in the human genome <a href="http://ow.ly/16TPYy" rel="nofollow">http://ow.ly/16TPYy</a> [...] </p>
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