Gary Coulton <g.coulton at s1.cxwms.ac.uk> wrote:
>I would value your advice regarding a linkage study I am involved in. We
>have used automated genotyping (using microsatellite PCR) on an an ABI
>system to generate allele data for families segregating idiopathic
>scoliosis. The data is generated by the Genotyper program.
>>The person who did the linkage analyses in the Dept. has recently left and
>I am at something of a loss to know how to analyse the data to assess
>linkage of the markers to the IS phenotype. I would be very grateful for
we are doing roughly the same for schizophrenia. in what state
is the allele data ? genotyper, or our version anyway, does not
produce "normal" linkage input files (as used by Lathrop/Lalouel/Ott
LINKAGE package) so some intermediate stage would be required.
if the data is in a form, or can easily be made in a form, that
LINKAGE can read then it is rather straightforward to analyse,
assuming that you know/can-guess the disease model. i am sure
that many people in this group could perform the analysis if we
could get our grubby paws on your data !
if you have no experience of linkage analysis though, it will
be a problem for you - it is slightly more work than picking
up a book on linkage and downloading the programs. i would
strongly suggest finding an "expert" (i.e. experienced person)
either locally or via this group.
Iain Fenton, Cardiff, UK.