Table 1 SNPs identified as associated with the phenotypic trait by different methods and approaches.
From: Data modeling as a main source of discrepancies in single and multiple marker association methods
| SNP (P-value) | SNP (HQ-score) | SMA Additive effect (SE)3 | ||||
|---|---|---|---|---|---|---|
| Chromosome | SMA raw1 | SMA corrected (QxPak) | Blossoc raw1 | Blossoc corrected | raw | corrected |
| 1 |
196 (52.2)2 |
196 (33.0) |
200 (215.7) |
200 (75.4) |
0.74 (0.05) |
0.71 (0.06) |
|
323 (16.9)* |
331 (10.4) | - | - |
0.40 (0.05) |
-0.69 (0.10) | |
|
415 (23.5) |
402 (17.6) |
416 (98.1) |
402 (52.2) |
0.46 (0.05) |
-0.78 (0.09) | |
|
778 (14.9) |
778 (11.5) |
778 (51.7)* |
778 (20.2) |
0.40 (0.05) |
0.40 (0.06) | |
| 2 |
1271 (15.8) |
1270 (14.4) |
1268 (94.6) |
1267 (31.1) |
0.36 (0.04) |
0.43 (0.05) |
|
1483 (28.3) |
1483 (15.4) |
1483 (113.2) |
1487 (31.2) |
-0.50 (0.04) |
-0.45 (0.05) | |
| 3 |
2149 (17.2) |
2133 (9.3) |
2134 (65.8) | - |
-0.39 (0.04) |
0.35 (0.06) |
| - | - |
2598 (37.9)* |
2601 (17.6) | - | - | |
| 4 |
3048 (35.9) |
3033 (27.4) |
3032 (237.4) |
3032 (104.4) |
0.54 (0.04) |
0.59 (0.05) |
|
3765 (44.9) |
3765 (23.4) |
3765 (183) |
3765 (47.5) |
0.62 (0.04) |
0.55 (0.05) | |
|
3953 (17.0) | - |
3952 (103.2) |
3952 (15.6) |
0.37 (0.04) | - | |
| 5 |
4935 (23.7) |
4935 (29.8) |
4940 (94.8) |
4935 (68.7) |
-0.47 (0.05) |
-0.63 (0.05) |
| Total # SNPs | 33/15 | 10 | 49/19 | 10 | ||