My LOD score is too high!

Mike Morris mike at medsun.unige.ch
Wed Feb 1 02:33:51 EST 1995


  Not a common complaint, I guess. But I cannot understand (or believe)
a result we recently had from LINKAGE 5.1.

  We have a consanguineous family, with a monogenic AR disease (locus
1). We have two perfectly linked markers (2 and 3), which complement 
each other in terms of informativity. The markers are at most 1% apart
(no rec. in this family).
 
  I ran MLINK, "Lod score table", with the following results:
  Locus order   Rec fractions   Rec varied   lod max (always theta=0)
      1 2             .0            1           3.1
      1 3             .0            1           1.3
  >>> 1 2 3         .0 .01          1          16.1  <<< 

  As I understand this, either I have screwed up somewhere, or the
program interprets the third line as "1 vs. superlocus 2+3", and I
get a genuine result. But 16 seems much too high!

  Can anyone clarify this for me?

	Mike Morris

*******************************************************************           
Division of Medical Genetics       tel (Switzerland) (22) 702.56.94
CMU, University of Geneva          fax (Switzerland) (22) 702.57.06
Geneva, Switzerland                email mike at medsun.unige.ch                  





More information about the Gen-link mailing list