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From:
Subject: Re: [DNA] Conference [recLOH]
Date: Tue, 7 Nov 2006 11:46:31 EST


In a message dated 11/7/2006 7:53:42 AM Pacific Standard Time,
writes:

> It used to be that each marker set was examined separately when
> determining mismatched markers. For example, if two kits had a marker
> mismatch at 385, 464 and CDY, then this would be 3 steps....well, now
> because of the discovery of recLOH, this is only 1 step...it doesn't
> matter how many of the palindromic markers are mismatched. Any number of
> mismatches on them results in a total of 1 step.

That's much broader than the way recLOH has been described previously on this
list, and I find it puzzling. In the first place, DYS385 is on a different
palindrome (#4) than DYS464 and CDY (#1). In the second place, only certain
changes qualified to be examples of recLOH, e.g.

DYS385a/b = 11-14 as the ancestral haplotype (two different alleles,
"heterozygous")
DYS385a/b = 14-14 or 11-11 as the haplotype in one branch (identical alleles,
"homozygous")

I can readily accept the above example as recLOH. It sounds like now you're
saying that the whole set below would count as 1 step, but maybe I
misunderstand.

DYS385a/b 11-14 and 11-15
DYS464a/b/c/d 15-15-17-17 and 15-16-17-17
CDYa/b 37-38 and 37-39

Could you give us some concrete examples of counting genetic distance? And
what about DYS459a/b (palindrome #1) and YCAII a/b (which is on palindrome #5)?

Ann Turner

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