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HapMap CEU (Utah residents with Northern and Western European ancestry) SNP genotype data was downloaded for each candidate gene and a total of 8 haplotype blocks were identified in the ADARB1 gene and 56 haplotype blocks in the ADARB2 gene in the program Haploview v4.2 [24].
Two blocks were identified in the pooled sample for GABBR1 (Figure 4A); however, when parsed into different ethnic groups, the block structure became different in the two samples.
Strong linkage disequilibrium was observed for only one out of four pairings of contiguous SNPs and no LD blocks were identified in this gene under the Gabriel algorithm[16] (Figure 1), therefore a systematic sliding window approach was implemented, considering haplotypes of 2 4 SNPs beginning with the first (5') marker, and working across the gene.
Five previously unreported collinearity blocks were identified in our study.
Many new gene blocks were identified in the B genome.
Seven discrete haplotype blocks were identified in the 1.7 Mb peak of association on chromosome 18.
Similar(36)
In contrast, 4,563 tag SNPs and 4,135 blocks are identified in [ 7], and 3,582 tag SNPs and 2,575 blocks are identified in [ 10].
Two sub-blocks were identified in both experiments: I, without foliar nutrition; II, receiving plant foliar nutrition.
Two sub-blocks were identified in both experiments: sub-block (A) without foliar nutrition and sub-block (B) with plant foliar nutrition.
A haplotype block was identified in all three populations, incorporating SNPs rs9322855, rs8004382 and rs4470055.
After blocks of similar genes are identified, TOM matrices for each block are identified in each individual TOM by average linkage hierarchical clustering.
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