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Table 5 Summary of GSA assays subgrouped by nucleotide variation type

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

Nucleotide variant type assay subsets All GSA data GSA pass manifest clusterfile QC GSA pass manifest QC and present in 1KG Phase 3
Single nucleotide variants (SNVs) 656,601 606,524 594,230
Multi-allelic variants (MAVs) 616 526 3*
Insertions 1110 1044 36
Deletions 2799 2677 95
Total 661,126 610,771 594,361
  1. *Poor overlap with 1KG MAVs and excluded from further analysis