Comments on: SNPwatch: Genetic Clues to Bowel Disease Found in Mice and Men http://spittoon.23andme.com/2009/09/30/snpwatch-genetic-clues-to-bowel-disease-found-in-mice-and-men/ A receptacle for genetic knowledge. Sat, 13 Feb 2010 03:51:43 +0000 http://wordpress.org/?v=2.9 hourly 1 By: ErinC http://spittoon.23andme.com/2009/09/30/snpwatch-genetic-clues-to-bowel-disease-found-in-mice-and-men/comment-page-1/#comment-2292 ErinC Fri, 02 Oct 2009 23:52:01 +0000 http://spittoon.23andme.com/?p=4896#comment-2292 Sometimes even SNPs that seem to be quite far apart from each other in the genome can be part of a block of DNA that is passed down through the generations largely unchanged. If there is never any evidence of recombination between two SNPs in one of these blocks, we say they are perfectly linked. 23andMe considers SNPs that show perfect linkage in the HapMap dataset to be equivalent. In HapMap rs10748643 and rs7071836 are perfectly linked. To put it another way: by looking at data from lots of people, we know that the A version of rs10748643 is always present when the A version of rs7071836 is there. That's why we feel confident saying that the two SNPs have the same effect. Sometimes even SNPs that seem to be quite far apart from each other in the genome can be part of a block of DNA that is passed down through the generations largely unchanged. If there is never any evidence of recombination between two SNPs in one of these blocks, we say they are perfectly linked. 23andMe considers SNPs that show perfect linkage in the HapMap dataset to be equivalent. In HapMap rs10748643 and rs7071836 are perfectly linked.

To put it another way: by looking at data from lots of people, we know that the A version of rs10748643 is always present when the A version of rs7071836 is there. That’s why we feel confident saying that the two SNPs have the same effect.

]]> By: nick http://spittoon.23andme.com/2009/09/30/snpwatch-genetic-clues-to-bowel-disease-found-in-mice-and-men/comment-page-1/#comment-2287 nick Thu, 01 Oct 2009 15:52:11 +0000 http://spittoon.23andme.com/?p=4896#comment-2287 Thanks for posting this paper! Could you tell me how you determine SNP "equivalence"? Being that these SNPs are almost 6 kb apart, how do you know they have an identical effect? Thanks in advance. Nick Thanks for posting this paper!

Could you tell me how you determine SNP “equivalence”? Being that these SNPs are almost 6 kb apart, how do you know they have an identical effect? Thanks in advance.

Nick

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