To examine whether the markers yielding significant evidence for linkage were consistent across the methods, Figure 1 displays a plot of the markers with LOD scores at the significance level of 0.05 (yellow) and 0.01 (red) for each analysis method. From bottom to top, the first level represents no covariates analyzed, the second level represents the methods with individual covariates analyzed, the third level represents all the PS methods, and the fourth level represents linkage analysis with the multiple covariates. Across these groups, several regions consistently provided significant linkage evidence regardless of the method of analysis, as defined as having at least eight methods resulting in significant evidence. These regions correspond to markers (with number of methods in parentheses) on: chromosome 2 (#47 D2S1790 (9), #48 D2S1331 (7), and #49 D2S373 (10)), chromosome 6 (#119 D6S1018 (8)), chromosome 7 (#162 D7S509 (15)), and chromosome 12 (#221 D12S1090 (8)). Evidence on chromosome 7 has been widely replicated in multiple studies [1-4]. However, the location of the red bars representing the most significant markers was not consistent across methods. It should be
