Table I.
Number of SNPs from chromosomes 21 and 22 across the MAF spectrum in HyperGEN African Americans genotyped on Affymetrix SNP Array 6.0, reference panels and three strategies from HapMap II (HMII) and 1000 Genomes (1KG) Projects. Total number of SNPs are red boldfaced.
| Rare | Low Freq | Common | Total | |
|---|---|---|---|---|
| HyperGEN | 294 | 2,317 | 21,096 | 23,707 |
| HMII-YRI | 2,644 | 9,283 | 64,878 | 76,805 |
| HMII-CEU | 2,701 | 7,611 | 57,366 | 67,678 |
| HMII-INT | 82 | 2,493 | 55,522 | 58,097 |
| HMII-UNI | 1,400 | 6,903 | 70,553 | 78,856 |
| HMII-MER | 3,457 | 11,383 | 71,546 | 86,386 |
| 1KG-YRI | 571 | 69,744 | 197,352 | 267,667 |
| 1KG-CEU | 336 | 41,227 | 149,202 | 190,765 |
| 1KG-INT | 0 | 4,760 | 123,334 | 128,094 |
| 1KG-UNI | 13,405 | 62,188 | 254,745 | 330,338 |
| 1KG-MER | 830 | 97,159 | 232,349 | 330,338 |
Rare variants with MAF ≤ 0.01; Low frequency variants with 0.01 < MAF ≤ 0.05; Common variants with MAF > 0.05
INT refers the intersection strategy; UNI refers the union strategy; MER refers the merge strategy