TY - JOUR
T1 - Comparison of marker types and map assumptions using Markov chain Monte Carlo-based linkage analysis of COGA data
AU - Sieh, Weiva
AU - Basu, Saonli
AU - Fu, Audrey Q.
AU - Rothstein, Joseph H.
AU - Scheet, Paul A.
AU - Stewart, William C.L.
AU - Sung, Yun J.
AU - Thompson, Elizabeth A.
AU - Wijsman, Ellen M.
PY - 2005/12/30
Y1 - 2005/12/30
N2 - We performed multipoint linkage analysis of the electrophysiological trait ECB21 on chromosome 4 in the full pedigrees provided by the Collaborative Study on the Genetics of Alcoholism (COGA). Three Markov chain Monte Carlo (MCMC)-based approaches were applied to the provided and re-estimated genetic maps and to five different marker panels consisting of microsatellite (STRP) and/or SNP markers at various densities. We found evidence of linkage near the GABRB1 STRP using all methods, maps, and marker panels. Difficulties encountered with SNP panels included convergence problems and demanding computations.
AB - We performed multipoint linkage analysis of the electrophysiological trait ECB21 on chromosome 4 in the full pedigrees provided by the Collaborative Study on the Genetics of Alcoholism (COGA). Three Markov chain Monte Carlo (MCMC)-based approaches were applied to the provided and re-estimated genetic maps and to five different marker panels consisting of microsatellite (STRP) and/or SNP markers at various densities. We found evidence of linkage near the GABRB1 STRP using all methods, maps, and marker panels. Difficulties encountered with SNP panels included convergence problems and demanding computations.
UR - http://www.scopus.com/inward/record.url?scp=30344457465&partnerID=8YFLogxK
U2 - 10.1186/1471-2156-6-S1-S11
DO - 10.1186/1471-2156-6-S1-S11
M3 - Article
C2 - 16451566
AN - SCOPUS:30344457465
SN - 1471-2156
VL - 6
JO - BMC genetics
JF - BMC genetics
IS - SUPPL.1
M1 - S11
ER -