Figure 1.

Highest two-point LOD scores in stage 1, for the sample group with low HDL-C, on each chromosome, as determined by use of either a recessive mode of inheritance or an ASP analysis. A dominant mode of inheritance yielded LOD scores that were typically slightly lower. The MLINK program of the LINKAGE package (Lathrop et al. 1984), version FASTLINK 4.1P (Cottingham et al. 1993; Schäffer et al. 1994), was used to perform the parametric linkage analyses. The parametric linkage analyses were performed with a dominant and recessive mode of inheritance by use of an affecteds-only strategy. Gene frequencies (reflecting an estimated population prevalence of ∼1%) of 0.4% and 8% were used for the dominant and recessive mode of inheritance. For each marker, the allele frequencies were estimated from all individuals, by use of the DOWNFREQ program (Göring and Terwilliger 2000b). The ASP analysis was performed using the SIBPAIR program (Kuokkanen et al. 1996) of the ANALYZE package (Göring and Terwilliger 2000a). The two-point analyses were performed using the AUTOSCAN program, a helper program that enables a genomewide scan by a single computer analysis. Multipoint analyses were performed with the Simwalk program, version 2.80 (Sobel and Lange 1996). The Mendelian errors were checked with the PedCheck program (O'Connell and Weeks 1998). The observed inconsistencies were handled by rereading raw gel data; if errors still remained, the genotypes of the particular subjects involved were coded as zeros. On chromosomes 1 and 9, two separate regions produced LOD scores >1.0 and are indicated as 1a and 1b and 9a and 9b, respectively. The recombination fraction shown is that of the two-point maximum LOD score in the parametric linkage analysis. The position given is the distance (in cM) from pter, for each marker.