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Table 5 Genotype correlations with the genome-wide SNP genotyping chip for lower sequencing coverages

From: Comparison of solution-based exome capture methods for next generation sequencing

  Sequencing depth 1× to 5× Sequencing depth 6× to 10× Sequencing depth 11× to 15×
Exome capture method Number of concordant SNPs Number of discordant SNPs Genotype correlation Number of concordant SNPs Number of discordant SNPs Genotype correlation Number of concordant SNPs Number of discordant SNPs Genotype correlation
Agilent SureSelect 779 258 75.12% 802 46 94.58% 647 17 97.44%
Agilent SureSelect 50 Mb 846 243 77.69% 1,127 37 96.82% 1,109 14 98.75%
NimbleGen SeqCap 206 60 77.44% 361 19 95.00% 459 13 97.25%
NimbleGen SeqCap v2.0 110 39 73.83% 338 9 97.41% 486 3 99.39%