Table 3 Density and accuracy for Locus C – SNP selection by order
From: Impact of marker density on the accuracy of association mapping
| Â | Â | Â | msSNP | Location error by the composite likelihood approach | ||||
|---|---|---|---|---|---|---|---|---|
| Â | Â | Â | Â | Â | Causal SNP out | Causal SNP in | ||
SNP density (kb/SNP) | No. SNPs | No. regions | χ21 | Location error | LD | kb | LD | kb |
Full (11) | 15701 | 126 | 2324 | 153 | 57 | 13 | 55 | 14 |
1/2 (22) | 7850 | 125 | 1762 | -2 | 5 | -19 | 5 | -20 |
1/3 (33) | 5233 | 118 | 2324 | 153 | 153 | 40 | 6 | 40 |
1/4 (44) | 3925 | 106 | 1762 | -2 | -65 | -56 | -57 | -53 |
1/5 (54) | 3140 | 94 | 2274 | 42 | -24 | -35 | -15 | -36 |
1/6 (65) | 2616 | 82 | 1285 | 20 | 20 | 20 | 10 | 15 |
1/8 (87) | 1962 | 64 | 1601 | 65 | -58 | -64 | -47 | -58 |
1/10 (109) | 1570 | 52 | 726 | -106 | -55 | -59 | -24 | -46 |
1/15 (163) | 1046 | 34 | 486 | -887 | 294 | 26 | 0 | 3 |
1/20 (217) | 785 | 26 | 726 | -106 | -97 | -160 | -26 | -43 |
1/25 (272) | 628 | 20 | 348 | -9 | 69 | -120 | 60 | -79 |
1/30 (326) | 523 | 17 | 229 | 188 | 362 | -25 | 0 | -25 |