This page is designed to see if you can determine which SNPs are linked to disease-causing alleles for a polygenic trait. Frequency of the trait is provided for two different populations (P1 and P2). The phenotype is ranked by a 0 - 7 scale with 0 indicating no adverse phenotype (i.e. wild-type); 1 is a mild phenotype; 7 is a severe phenotype.
Three gene loci are illustrated with a total of six different SNPs, two per locus. Adding toteh complexity, each locus has maternal and paternal haplotypes. In this table, you can see the SNP data but you cannot see the alleles that contribute to the trait and which are located near these SNPs. A polymorphism is indicated by a letter or number with an apostrophe (e.g. 1 v. 1'). Each combination of SNPs is color-coded to permit easier visualization of the distribution of the haplotypes.
| Locus 1 | Locus 2 | Locus 3 | % P1 | % P2 | Phenotype |
| 1 - 2 1 - 2 |
a - b a - b |
X - Y X - Y |
20
|
3 | 0 |
| 1 - 2 1 - 2 |
a - b a - b |
X' - Y' X - Y |
12
|
3 | 2 |
| 1 - 2 1 - 2 |
a - b a - b |
X' - Y' X' - Y' |
12
|
3 | 2 |
| 1 - 2 1 - 2 |
a' - b' a - b |
X - Y X - Y |
20
|
5 | 0 |
| 1 - 2 1 - 2 |
a' - b' a - b |
X' - Y' X - Y |
12
|
5 | 1 |
| 1 - 2 1 - 2 |
a' - b' a - b |
X' - Y' X' - Y' |
10
|
5 | 1 |
| 1 - 2 1 - 2 |
a' - b' a' - b' |
X - Y X - Y |
2
|
4 | 1 |
| 1 - 2 1 - 2 |
a' - b' a' - b' |
X' - Y' X - Y |
0.01
|
3 | 5 |
| 1 - 2 1 - 2 |
a' - b' a' - b' |
X' - Y' X' - Y' |
0.001
|
3 | 5 |
| 1' - 2' 1 - 2 |
a - b a - b |
X - Y X - Y |
2
|
3 | 3 |
| 1' - 2' 1 - 2 |
a - b a - b |
X' - Y' X - Y |
1
|
3 | 4 |
| 1' - 2' 1 - 2 |
a - b a - b |
X' - Y' X' - Y' |
1
|
3 | 4 |
| 1' - 2' 1 - 2 |
a' - b' a - b |
X - Y X - Y |
0.01
|
5 | 3 |
| 1' - 2' 1 - 2 |
a' - b' a - b |
X' - Y' X - Y |
0.01
|
5 | 4 |
| 1' - 2' 1 - 2 |
a' - b' a - b |
X' - Y' X' - Y' |
0.01
|
5 | 4 |
| 1' - 2' 1 - 2 |
a' - b' a' - b' |
X - Y X - Y |
0.005
|
3 | 6 |
| 1' - 2' 1 - 2 |
a' - b' a' - b' |
X' - Y' X - Y |
0.001
|
3 | 7 |
| 1' - 2' 1 - 2 |
a' - b' a' - b' |
X' - Y' X' - Y' |
0.0001
|
3 | 7 |
| 1' - 2' 1' - 2' |
a - b a - b |
X - Y X - Y |
2
|
3 | 3 |
| 1' - 2' 1' - 2' |
a - b a - b |
X' - Y' X - Y |
1
|
3 | 4 |
| 1' - 2' 1' - 2' |
a - b a - b |
X' - Y' X' - Y' |
1
|
3 | 4 |
| 1' - 2' 1' - 2' |
a' - b' a - b |
X - Y X - Y |
2
|
5 | 3 |
| 1' - 2' 1' - 2' |
a' - b' a - b |
X' - Y' X - Y |
1
|
5 | 4 |
| 1' - 2' 1' - 2' |
a' - b' a - b |
X' - Y' X' - Y' |
1
|
5 | 4 |
| 1' - 2' 1' - 2' |
a' - b' a' - b' |
X - Y X - Y |
0.001
|
3 | 6 |
| 1' - 2' 1' - 2' |
a' - b' a' - b' |
X' - Y' X - Y |
0.0001
|
3 | 7 |
| 1' - 2' 1' - 2' |
a' - b' a' - b' |
X' - Y' X' - Y' |
0.00001
|
3 | 7 |
© Copyright 2001 Department of Biology, Davidson College, Davidson, NC 28036
Send comments, questions, and suggestions to: macampbell@davidson.edu