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Table 7 Number of GSA assays and their relative percentages binned by alternate allele frequency in 1KG Phase 3 data

From: Establishing analytical validity of BeadChip array genotype data by comparison to whole-genome sequence and standard benchmark datasets

Alternate allele frequency bins (%) All GSA assays and in 1KG GSA pass QC and in 1KG Percent assays that failed QC (%)
0–0.1 17,830 17,454 2
0.1–1 148,959 138,342 7
1–5 113,374 104,272 8
5–10 63,688 58,421 8
10–20 84,729 78,631 7
20–30 56,601 52,398 7
30–40 39,684 36,620 8
40–50 30,095 27,476 9
50–60 25,078 23,053 8
60–70 21,944 20,134 8
70–80 20,866 19,210 8
80–90 15,612 14,312 8
90–100 4552 4023 12
Total 643,012 594,346 8