Table 1.
Mechanical heuristics: estimated SNP effects in t-statistic units (estimated effect divided by standard error) in the GWAS within BINs and across the whole population: three examples each of “Negative to Positive” and “Positive to Negative” pattern as well as for a SNP in the PLAG1 coding region for BB and TC populations.
| SNP Chr:Mb (Gene) | BIN1 | BIN2 | BIN3 | BIN4 | BIN5 | Whole |
|---|---|---|---|---|---|---|
| Brahman | ||||||
| 18:56.5 (CPT1C) | −7.58* | −1.38 | −0.86 | 2.67 | 4.84* | 0.60 |
| 23:50.0 (PRPF4B) | −4.50* | 0.91 | 1.39 | 2.14 | 3.58* | 1.28 |
| 28:23.3 (CTNNA3) | −8.00* | −3.05 | −1.93 | 1.55 | 5.06* | −0.05 |
| 4:71.4 (OSBPL3) | 5.95* | 1.45 | −0.50 | −1.89 | −6.01* | 0.29 |
| 5:54.9 (LRIG3) | 4.86* | −0.30 | −0.79 | −2.05 | −3.94* | 1.18 |
| 27:1.1 (CSMD1) | 4.53* | 1.18 | −0.66 | −0.69 | −2.37* | 0.58 |
| 14:25.0 (PLAG1) | 0.74 | 2.07 | 3.46* | 2.15 | 2.02 | 4.71* |
| Tropical Composite | ||||||
| 14:84.3 (SNTB1) | −4.21* | 0.25 | 1.69 | 1.93 | 3.42* | 0.64 |
| 16:28.5 (CNIH3) | −3.39* | −2.00 | 0.65 | 1.10 | 2.74* | 0.52 |
| 23:15.3 (FOXP4) | −6.20* | −1.94 | −0.76 | 1.87 | 5.14* | −0.26 |
| 1:5.39 (GRIK1) | 2.90* | 0.74 | 0.16 | −0.83 | −2.98* | 1.58 |
| 10:75.6 (KCNH5) | 3.56* | 2.07 | 1.00 | −0.12 | −3.63* | −0.54 |
| 22:57.3 (PPARG) | 3.49* | 1.12 | −0.09 | −2.66* | −2.81* | 1.01 |
| 14:25.0 (PLAG1) | −0.08 | 2.83* | 2.47 | 1.02 | 0.44 | 6.16* |
*indicates significance at P < 0.001.