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We used a modular approach to identify the most significant loci associated with asthma by combining silhouette statistics and physical distance method with cluster-adapted thresholding.
To address these points in the current study we used a modular approach to identify the most significant loci associated with asthma by combining silhouette statistics and physical distance method with cluster-adapted thresholding; in this way we found 97% concordance between pooled and individual genotyping, with 36 out of 37 top-scoring SNP significant at the individual genotyping level.
Significant peaks have the expected skewed bell shape caused by linkage dragging markers nearby the most significant loci.
The top 22 most significant loci are restricted to four chromosome regions, namely 7p12-14, 9p214q11.24q11.2 and 14q32.33.
Of seven SNPs associated with palmitic acid, Map-0751 and 6064 were the two most significant loci.
The 95% confidence interval (CI) was determined by a LOD score drop-off of 2 from the value of the most significant loci.
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The 530 Kbp physical region includes the BAC clone OJ1174_H11 harboring the most significant locus, RM18639, for the variation in FGP of the F2 population (Table 4; ANOVA).
Based on the reference rice genome database, the corresponding location was determined at 19.72 Mbp region, on a BAC clone OJ1174_H11, which also includes RM18639 - the most significant locus for the variation in FGP of the F2 population (Figure 3B).
The most significant locus was observed on 5q35.1, harboring the SLIT3 gene (P = 2×10−3).
The most significant locus included SLIT3, CCDC99, and DOCK2 on 5q35.1.
The most significant locus included a 646 kb duplication of SLIT3, CCDC99, and DOCK2 on 5q35.1 shared by 5 MDD cases.
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