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Table 1 Optimised panel of identifying SNPs

From: A SNP profiling panel for sample tracking in whole-exome sequencing studies

Chromosome Positiona dbSNP rsID Gene Alleles HapMap 3 AF
      CEU CHB JPT YRI
1 179520506 rs1410592 NPHS2 A/C 0.59 0.62 0.54 0.53
1 67861520 rs2229546 IL12RB2 A/G 0.64 0.36 0.44 0.58
2 169789016 rs497692 ABCB11 A/Gb 0.55 0.65 0.51 0.22
2 227896976 rs10203363 COL4A4 C/T 0.46 0.44 0.36 0.57
3 4403767 rs2819561 SUMF1 A/Gb 0.56 0.73 0.73 0.72
4 5749904 rs4688963 EVC A/Gb 0.33 0.65 0.67 0.52
5 82834630 rs309557 VCAN A/Gb 0.49 0.34 0.52 0.50
6 146755140 rs2942 GRM1 C/T 0.54 0.49 0.55 0.47
7 48450157 rs17548783 ABCA13 C/T 0.46 0.72 0.53 0.48
8 94935937 rs4735258 PDP1 C/T 0.40 0.64 0.66 0.46
9 100190780 rs1381532 TDRD7 A/Gb 0.48 0.59 0.50 0.58
10 100219314 rs10883099 HPSE2 A/G 0.52 0.52 0.53 0.62
11 16133413 rs4617548 SOX6 C/T 0.52 0.65 0.61 0.51
12 993930 rs7300444 WNK1 A/G 0.46 0.55 0.48 0.28
13 39433606 rs9532292 FREM2 A/G 0.29 0.41 0.44 0.54
14 50769717 rs2297995 L2HGDH A/G 0.55 0.65 0.67 0.59
15 34528948 rs4577050 SLC12A6 C/T 0.68 0.75 0.63 0.32
16 70303580 rs2070203 AARS A/Gb 0.53 0.28 0.51 0.49
17 71197748 rs1037256 COG1 C/T 0.50 0.67 0.65 0.56
18 21413869 rs9962023 LAMA3 A/G 0.67 0.81c 0.75 0.51
19 10267077 rs2228611 DNMT1 C/Tb 0.47 0.73 0.56 0.48
20 6100088 rs10373 FERMT1 G/Tb 0.54 0.31 0.35 0.58
21 44323590 rs4148973 NDUFV3 C/T 0.65 0.33 0.38 0.73
22 21141300 rs4675 SERPIND1 A/C 0.46 0.62 0.51 0.57
  1. aPosition as defined in genome reference assembly GRCh37 (hg19).
  2. bSNP is defined on the negative strand.
  3. cAF marginally outside target range for candidate selection. Selected due to paucity of candidates on chromosome 18.